Citrus Sinensis ID: 038356

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------
Protein Sequence
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Secondary Structure (PSIPRED)
ccccccccccccEEEEEEEcccccHHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHcHHHHHHHHHHHHcccEEEEEEc
Coil and Loop (DISEMBL)
vinsayynrgALGALLVYDVTKSTTFENVSRWLKdlgdhadsNIVIMMIGNktdlkhlptsMSIFQSLSGLLFKLIFI
Flexible Loop (DISEMBL)
vinsayynrgalgaLLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Low Complexity Region (SEG)
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Disordered region (IsUnstruct)
****AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF*
Disordered Region (DISOPRED)
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Disordered Region (DISEMBL)
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Disordered Region (DISPRO)
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	78	2.2.26 [Sep-21-2011]
O04486	217	Ras-related protein RABA2	yes	no	0.730	0.262	0.879	5e-23
Q39572	216	Ras-related protein YPTC6	N/A	no	0.730	0.263	0.793	9e-21
Q39434	214	Ras-related protein Rab2B	N/A	no	0.730	0.266	0.758	6e-20
Q5ZJN2	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
Q2TA29	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
P62494	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
P62493	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
Q5R9M7	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
Q52NJ1	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19
P62492	216	Ras-related protein Rab-1	yes	no	0.923	0.333	0.623	1e-19

>sp|O04486|RAA2A_ARATH Ras-related protein RABA2a OS=Arabidopsis thaliana GN=RABA2A PE=2 SV=1

 Score =  106 bits (264), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

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

>sp|Q39572|YPTC6_CHLRE Ras-related protein YPTC6 OS=Chlamydomonas reinhardtii GN=YPTC6 PE=3 SV=1

 Score = 98.6 bits (244), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 46/58 (79%), Positives = 52/58 (89%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGA+GALLVYD+TKS TFENV RWLK+L DHADSNIVIM++GNK+DLKHL
Sbjct: 76  AITSAYY-RGAVGALLVYDITKSVTFENVERWLKELRDHADSNIVIMLVGNKSDLKHL 132

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q39434|RB2BV_BETVU Ras-related protein Rab2BV OS=Beta vulgaris GN=RAB2BV PE=2 SV=1

 Score = 95.9 bits (237), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 44/58 (75%), Positives = 50/58 (86%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGA+GALLVYD+TK  TF+NV RWL++L DHADSNIVIMM GNK+DLKHL
Sbjct: 76  AITSAYY-RGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLKHL 132

Beta vulgaris (taxid: 161934)

>sp|Q5ZJN2|RB11A_CHICK Ras-related protein Rab-11A OS=Gallus gallus GN=RAB11A PE=2 SV=1

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Modulates endosomal trafficking. Acts as a major regulator of membrane delivery during cytokinesis.

Gallus gallus (taxid: 9031)

>sp|Q2TA29|RB11A_BOVIN Ras-related protein Rab-11A OS=Bos taurus GN=RAB11A PE=2 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Bos taurus (taxid: 9913)

>sp|P62494|RB11A_RAT Ras-related protein Rab-11A OS=Rattus norvegicus GN=Rab11a PE=1 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Rattus norvegicus (taxid: 10116)

>sp|P62493|RB11A_RABIT Ras-related protein Rab-11A OS=Oryctolagus cuniculus GN=RAB11A PE=2 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Oryctolagus cuniculus (taxid: 9986)

>sp|Q5R9M7|RB11A_PONAB Ras-related protein Rab-11A OS=Pongo abelii GN=RAB11A PE=2 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Pongo abelii (taxid: 9601)

>sp|Q52NJ1|RB11A_PIG Ras-related protein Rab-11A OS=Sus scrofa GN=RAB11A PE=2 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Sus scrofa (taxid: 9823)

>sp|P62492|RB11A_MOUSE Ras-related protein Rab-11A OS=Mus musculus GN=Rab11a PE=1 SV=3

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 133

Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

Regulates endocytic recycling. May exert its functions by interacting with multiple effector proteins in different complexes. Acts as a major regulator of membrane delivery during cytokinesis. Together with MYO5B and RAB8A participates in epithelial cell polarization. Together with RAB3IP, RAB8A, 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 participates in CFTR trafficking to the plasma membrane and TF (Transferrin) recycling in nonpolarized cells. Required in a complex with MYO5B and RAB11FIP2 for the transport of NPC1L1 to the plasma membrane. Participates in the sorting and basolateral transport of CDH1 from the Golgi apparatus to the plasma membrane. Regulates the recycling of FCGRT (receptor of Fc region of monomeric Ig G) to basolateral membranes.

Mus musculus (taxid: 10090)

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	78
297849266	217	hypothetical protein ARALYDRAFT_888208 [	0.730	0.262	0.879	2e-21
15217568	217	Ras-related protein RABA2a [Arabidopsis	0.730	0.262	0.879	2e-21
224120066	218	predicted protein [Populus trichocarpa]	0.730	0.261	0.879	3e-21
224129448	215	predicted protein [Populus trichocarpa]	0.730	0.265	0.879	3e-21
225465200	215	PREDICTED: ras-related protein RABA2a [V	0.730	0.265	0.879	4e-21
351728017	216	uncharacterized protein LOC100499980 [Gl	0.730	0.263	0.862	5e-21
255570960	215	protein with unknown function [Ricinus c	0.730	0.265	0.862	5e-21
358249314	217	uncharacterized protein LOC100797258 [Gl	0.730	0.262	0.862	6e-21
226491888	217	ras-related protein Rab11C [Zea mays] gi	0.730	0.262	0.862	1e-20
357445241	220	Ras-related protein RABA2a [Medicago tru	0.730	0.259	0.827	4e-20

>gi|297849266|ref|XP_002892514.1| hypothetical protein ARALYDRAFT_888208 [Arabidopsis lyrata subsp. lyrata] gi|297338356|gb|EFH68773.1| hypothetical protein ARALYDRAFT_888208 [Arabidopsis lyrata subsp. lyrata]

 Score =  106 bits (265), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15217568|ref|NP_172434.1| Ras-related protein RABA2a [Arabidopsis thaliana] gi|3024516|sp|O04486.1|RAA2A_ARATH RecName: Full=Ras-related protein RABA2a; Short=AtRABA2a; AltName: Full=Ras-related protein Rab11C; Short=AtRab11C; Flags: Precursor gi|2160157|gb|AAB60720.1| Strong similarity to A. thaliana ara-2 (gb|ATHARA2). ESTs gb|ATTS2483,gb|ATTS2484,gb|AA042159 come from this gene [Arabidopsis thaliana] gi|2231303|gb|AAB61994.1| ras-related small GTPase [Arabidopsis thaliana] gi|15010638|gb|AAK73978.1| At1g09630/F21M12_2 [Arabidopsis thaliana] gi|21553810|gb|AAM62903.1| putative RAS-related protein RAB11C [Arabidopsis thaliana] gi|22137284|gb|AAM91487.1| At1g09630/F21M12_2 [Arabidopsis thaliana] gi|332190350|gb|AEE28471.1| Ras-related protein RABA2a [Arabidopsis thaliana]

 Score =  106 bits (264), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120066|ref|XP_002331128.1| predicted protein [Populus trichocarpa] gi|222872856|gb|EEF09987.1| predicted protein [Populus trichocarpa]

 Score =  105 bits (263), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129448|ref|XP_002328719.1| predicted protein [Populus trichocarpa] gi|118484335|gb|ABK94045.1| unknown [Populus trichocarpa] gi|222839017|gb|EEE77368.1| predicted protein [Populus trichocarpa]

 Score =  105 bits (262), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465200|ref|XP_002264444.1| PREDICTED: ras-related protein RABA2a [Vitis vinifera] gi|297739506|emb|CBI29688.3| unnamed protein product [Vitis vinifera]

 Score =  105 bits (261), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351728017|ref|NP_001235133.1| uncharacterized protein LOC100499980 [Glycine max] gi|255628259|gb|ACU14474.1| unknown [Glycine max]

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 50/58 (86%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHAD+NIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADANIVIMLIGNKTDLKHL 132

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570960|ref|XP_002526431.1| protein with unknown function [Ricinus communis] gi|223534211|gb|EEF35926.1| protein with unknown function [Ricinus communis]

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 50/58 (86%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHAD+NIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADANIVIMLIGNKTDLKHL 132

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249314|ref|NP_001240030.1| uncharacterized protein LOC100797258 [Glycine max] gi|255645100|gb|ACU23049.1| unknown [Glycine max]

 Score =  104 bits (260), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 50/58 (86%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHAD+NIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADANIVIMLIGNKTDLKHL 132

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226491888|ref|NP_001147252.1| ras-related protein Rab11C [Zea mays] gi|195609118|gb|ACG26389.1| ras-related protein Rab11C [Zea mays]

 Score =  103 bits (257), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 50/58 (86%), Positives = 52/58 (89%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHAD NIVIM+IGNKTDLKHL
Sbjct: 76  AITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADYNIVIMLIGNKTDLKHL 132

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445241|ref|XP_003592898.1| Ras-related protein RABA2a [Medicago truncatula] gi|92893896|gb|ABE91946.1| Ras GTPase; Sigma-54 factor, interaction region [Medicago truncatula] gi|355481946|gb|AES63149.1| Ras-related protein RABA2a [Medicago truncatula]

 Score =  102 bits (253), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 48/58 (82%), Positives = 53/58 (91%), Gaps = 1/58 (1%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGALGALLVYDVTK TTF+NV+RWLK+L DHAD+NIVIM+IGNKTDLKHL
Sbjct: 79  AITSAYY-RGALGALLVYDVTKPTTFDNVTRWLKELRDHADANIVIMLIGNKTDLKHL 135

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	78
TAIR|locus:2024276	217	RAB11c "RAB GTPase 11C" [Arabi	0.717	0.258	0.894	9e-22
UNIPROTKB|Q5ZJN2	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|F2Z4D5	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|Q2TA29	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|P62490	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|P62491	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|Q52NJ1	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|P62493	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
UNIPROTKB|Q5R9M7	216	RAB11A "Ras-related protein Ra	0.910	0.328	0.631	3.1e-19
MGI|MGI:1858202	216	Rab11a "RAB11a, member RAS onc	0.910	0.328	0.631	3.1e-19

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

 Score = 254 (94.5 bits), Expect = 9.0e-22, P = 9.0e-22
 Identities = 51/57 (89%), Positives = 53/57 (92%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
             I SAYY RGALGALLVYDVTK TTFENVSRWLK+L DHADSNIVIM+IGNKTDLKHL
Sbjct:    77 ITSAYY-RGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHL 132

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

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0000910 "cytokinesis" evidence=IMP

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

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

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

UNIPROTKB|Q5ZJN2 RAB11A "Ras-related protein Rab-11A" [Gallus gallus (taxid:9031)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=IEA

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

GO:0031175 "neuron projection development" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

GO:0072659 "protein localization to plasma membrane" evidence=IEA

GO:0032154 "cleavage furrow" evidence=ISS

UNIPROTKB|F2Z4D5 RAB11A "Ras-related protein Rab-11A" [Bos taurus (taxid:9913)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0072659 "protein localization to plasma membrane" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

GO:0032154 "cleavage furrow" evidence=IEA

GO:0031175 "neuron projection development" evidence=IEA

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

GO:0005802 "trans-Golgi network" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q2TA29 RAB11A "Ras-related protein Rab-11A" [Bos taurus (taxid:9913)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0006184 "GTP catabolic process" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|P62490 RAB11A "Ras-related protein Rab-11A" [Canis lupus familiaris (taxid:9615)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

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

GO:0005802 "trans-Golgi network" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|P62491 RAB11A "Ras-related protein Rab-11A" [Homo sapiens (taxid:9606)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0030133 "transport vesicle" evidence=IEA

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

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

GO:0005886 "plasma membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0019905 "syntaxin binding" evidence=NAS

GO:0048227 "plasma membrane to endosome transport" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0032154 "cleavage furrow" evidence=IDA

GO:0000910 "cytokinesis" evidence=IMP

GO:0003924 "GTPase activity" evidence=IDA

GO:0031175 "neuron projection development" evidence=IMP

GO:0072659 "protein localization to plasma membrane" evidence=IDA

GO:0043234 "protein complex" evidence=IDA

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

GO:0032402 "melanosome transport" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

GO:0006833 "water transport" evidence=TAS

GO:0030659 "cytoplasmic vesicle membrane" evidence=TAS

GO:0055085 "transmembrane transport" evidence=TAS

UNIPROTKB|Q52NJ1 RAB11A "Ras-related protein Rab-11A" [Sus scrofa (taxid:9823)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

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

GO:0005802 "trans-Golgi network" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|P62493 RAB11A "Ras-related protein Rab-11A" [Oryctolagus cuniculus (taxid:9986)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0003924 "GTPase activity" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

UNIPROTKB|Q5R9M7 RAB11A "Ras-related protein Rab-11A" [Pongo abelii (taxid:9601)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0003924 "GTPase activity" evidence=ISS

GO:0031175 "neuron projection development" evidence=ISS

GO:0032154 "cleavage furrow" evidence=ISS

GO:0032402 "melanosome transport" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0055037 "recycling endosome" evidence=ISS

GO:0072659 "protein localization to plasma membrane" evidence=ISS

MGI|MGI:1858202 Rab11a "RAB11a, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 48/76 (63%), Positives = 58/76 (76%)

Query:     2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
             I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct:    76 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 134

Query:    59 PTSMS-IFQSLSGLLF 73
             PT  +  F   +GL F
Sbjct:   135 PTDEARAFAEKNGLSF 150

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000910 "cytokinesis" evidence=ISO

GO:0003924 "GTPase activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005768 "endosome" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0006810 "transport" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0030133 "transport vesicle" evidence=ISO

GO:0030424 "axon" evidence=IDA

GO:0031175 "neuron projection development" evidence=ISO

GO:0032154 "cleavage furrow" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0045773 "positive regulation of axon extension" evidence=IMP

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

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

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

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

GO:0072659 "protein localization to plasma membrane" 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)
P17610	YPT3_SCHPO	No assigned EC number	0.7068	0.7307	0.2663	yes	no
O04486	RAA2A_ARATH	No assigned EC number	0.8793	0.7307	0.2626	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	78
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-33
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	3e-29
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	3e-26
pfam00071	162	pfam00071, Ras, Ras family	2e-21
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	6e-21
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	7e-21
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-18
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	2e-17
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	5e-17
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-15
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-15
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-14
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	7e-14
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-13
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	3e-13
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-12
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	8e-12
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-10
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	8e-10
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-09
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-09
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	2e-09
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-09
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	7e-09
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-08
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-08
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	6e-08
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-07
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-07
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-07
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-07
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	5e-07
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-07
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	8e-07
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	1e-06
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-06
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-06
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-06
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-06
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	4e-06
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	4e-06
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-05
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	4e-05
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-04
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-04
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-04
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	3e-04
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	4e-04
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	4e-04
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	4e-04
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	5e-04
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	6e-04
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-04
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	0.001
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	0.001
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	0.004

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

 Score =  112 bits (283), Expect = 1e-33
 Identities = 44/57 (77%), Positives = 52/57 (91%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GALLVYD+TK +TFENV RWLK+L DHADSNIVIM++GNK+DL+HL
Sbjct: 68  ITSAYY-RGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHL 123

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  103 bits (257), Expect = 3e-29
 Identities = 43/57 (75%), Positives = 49/57 (85%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GALLVYD+TK  TF+NV RWL++L DHADSNIVIMM GNK+DL HL
Sbjct: 77  ITSAYY-RGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHL 132

Length = 216

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

 Score = 93.7 bits (234), Expect = 3e-26
 Identities = 32/56 (57%), Positives = 45/56 (80%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I S+YY RGA+GALLVYD+T   +FEN+  WLK+L ++A  N+VIM++GNK+DL+ 
Sbjct: 65  ITSSYY-RGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEE 119

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 81.4 bits (202), Expect = 2e-21
 Identities = 28/56 (50%), Positives = 40/56 (71%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           +   YY RGA G LLVYD+T   +FENV +WL+++  HAD N+ I+++GNK DL+ 
Sbjct: 64  LRPLYY-RGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLED 118

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

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

 Score = 79.8 bits (198), Expect = 6e-21
 Identities = 30/54 (55%), Positives = 42/54 (77%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I S+YY RGA GA+LVYDVT   +FEN+ +WL +L ++A  NI I+++GNK+DL
Sbjct: 65  ITSSYY-RGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDL 117

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

 Score = 80.2 bits (198), Expect = 7e-21
 Identities = 30/56 (53%), Positives = 42/56 (75%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I  +YY RGA GALLVYD+T+  TF +++ WL+D   H++SN+ IM+IGNK DL+ 
Sbjct: 69  ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLES 123

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 74.6 bits (183), Expect = 2e-18
 Identities = 31/56 (55%), Positives = 42/56 (75%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I  +YY RGA GALLVYD+T+  TF +++ WL+D   HA++N+ IM+IGNK DL H
Sbjct: 71  ITRSYY-RGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAH 125

Length = 210

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

 Score = 71.4 bits (176), Expect = 2e-17
 Identities = 25/50 (50%), Positives = 33/50 (66%), Gaps = 1/50 (2%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           YY RGA  A++VYD+T   +FE    W+K+L +H   NIVI + GNK DL
Sbjct: 70  YY-RGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADL 118

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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 70.2 bits (172), Expect = 5e-17
 Identities = 23/54 (42%), Positives = 40/54 (74%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I  +YY R A GA++ YD+T+ ++FE+V  W++++  +  SN+V+++IGNK DL
Sbjct: 68  ITQSYY-RSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

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

 Score = 66.5 bits (163), Expect = 1e-15
 Identities = 23/56 (41%), Positives = 41/56 (73%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I ++YY RGA+G +LVYD+T   +FEN+  W++++ +HA  ++  M++GNK D++ 
Sbjct: 68  ITTSYY-RGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEE 122

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

 Score = 65.9 bits (161), Expect = 2e-15
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA GALLVYD+T   +F  ++ WL D    A  +IVI+++GNK DL
Sbjct: 69  YYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDL 117

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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 62.9 bits (153), Expect = 3e-14
 Identities = 25/49 (51%), Positives = 35/49 (71%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA GAL+VYD+T+ +T+ ++S WL D  +  + N VI +IGNK DL
Sbjct: 71  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADL 119

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

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

 Score = 61.9 bits (151), Expect = 7e-14
 Identities = 25/53 (47%), Positives = 37/53 (69%), Gaps = 2/53 (3%)

Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDL 55
           S+YY RGA G +LVYDVT+  TF+N+  WL +L  ++ + + V M++GNK D 
Sbjct: 67  SSYY-RGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDK 118

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

 Score = 61.2 bits (149), Expect = 1e-13
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL 
Sbjct: 67  ITSSYY-RGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

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

 Score = 60.3 bits (147), Expect = 3e-13
 Identities = 23/51 (45%), Positives = 37/51 (72%), Gaps = 1/51 (1%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           YY R A GA+LVYD+T + +F+ V +W+K+L     +NI ++++GNK DL+
Sbjct: 69  YY-RDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE 118

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

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

 Score = 58.9 bits (142), Expect = 2e-12
 Identities = 23/53 (43%), Positives = 37/53 (69%), Gaps = 1/53 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTD 54
           I SAYY R A G +LVYD+TK  TF+++ +W+K +  +A  +  ++++GNK D
Sbjct: 65  ITSAYY-RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLD 116

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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 56.5 bits (137), Expect = 8e-12
 Identities = 19/49 (38%), Positives = 35/49 (71%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+N  +W+ D+ D   ++++I+++GNKTDL
Sbjct: 69  YIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDL 117

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|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 53.7 bits (129), Expect = 1e-10
 Identities = 24/54 (44%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  AYY R A   LL+YDVT  ++F+N+  WL ++ ++A S++VIM++GNK D+
Sbjct: 66  VTHAYY-RDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADM 118

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|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 52.1 bits (125), Expect = 8e-10
 Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 3/56 (5%)

Query: 5   AYYNRGALGALLVYDVTKSTTFENVSRWL---KDLGDHADSNIVIMMIGNKTDLKH 57
             Y  GA    LVYD+T S +FEN+  WL   K + + +++   ++++GNKTDL+H
Sbjct: 68  DKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEH 123

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

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

 Score = 51.3 bits (122), Expect = 1e-09
 Identities = 20/52 (38%), Positives = 36/52 (69%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           Y R +  A++VYD+T   +FEN ++W++D+ +    +++I ++GNKTDL  L
Sbjct: 49  YIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 100

Length = 176

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

 Score = 51.2 bits (123), Expect = 2e-09
 Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 5/55 (9%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH----ADSNIVIMMIGNKTDLK 56
           YY +GA+GA++V+DVT+ +TFE V +W  DL           I  +++ NK DLK
Sbjct: 70  YY-KGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLK 123

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

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

 Score = 51.3 bits (123), Expect = 2e-09
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDL 55
           I  +YY R ++G LLV+D+T   +FE+V  WL++   H      V +++G+K DL
Sbjct: 68  ITRSYY-RNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDL 121

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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 50.2 bits (120), Expect = 3e-09
 Identities = 23/53 (43%), Positives = 34/53 (64%), Gaps = 2/53 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTD 54
           I S YY RG  G ++VYDVT   +F NV RWL+++  + D  +  +++GNK D
Sbjct: 71  ITSTYY-RGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDD-VCKVLVGNKND 121

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

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

 Score = 49.2 bits (117), Expect = 7e-09
 Identities = 19/49 (38%), Positives = 34/49 (69%), Gaps = 1/49 (2%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y+RGA G +LVYD+T   +F+ + RW+K++ +HA   +  +++GN+  L
Sbjct: 75  YSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHL 122

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

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

 Score = 48.4 bits (115), Expect = 1e-08
 Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G +L+YD+T   +F  V  W   +  ++  N  ++++GNK D++
Sbjct: 66  ITTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDME 119

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

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

 Score = 47.2 bits (112), Expect = 3e-08
 Identities = 18/54 (33%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I  +YY R A   +L YD+T   +F  +  WL+++  +A++ ++ +++GNK DL
Sbjct: 72  ITQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDL 124

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

 Score = 46.9 bits (111), Expect = 6e-08
 Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 1/52 (1%)

Query: 7   YNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           Y RGA G L+VYD T    + E    WL++L + A  ++ I+++GNK DL  
Sbjct: 74  YYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFD 125

Length = 219

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

 Score = 45.8 bits (109), Expect = 1e-07
 Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 5/52 (9%)

Query: 9   RGALGALLVYDVTKSTTFENVSRWLKD----LGDHADS-NIVIMMIGNKTDL 55
           +   G LLVYDVT   +FE +  WLK+     G H +  NIV+++  NK DL
Sbjct: 71  KDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDL 122

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

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

 Score = 45.4 bits (107), Expect = 1e-07
 Identities = 18/53 (33%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTD 54
           I   YY R A G  LVYD++   +++++ +W+ D+ ++A   +  ++IGNK D
Sbjct: 65  ITKQYYRR-AQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKAD 116

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 24/55 (43%), Positives = 37/55 (67%), Gaps = 3/55 (5%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSR-WLKDLGDHA-DSNIVIMMIGNKTD 54
           + S+YY R A G +LVYDVT+  TF N+S  W K++  ++ + + V M++GNK D
Sbjct: 78  LTSSYY-RNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVD 131

Length = 211

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

 Score = 45.1 bits (107), Expect = 2e-07
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 5/76 (6%)

Query: 6   YYNRGALGALLVYDVTK--STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH---LPT 60
            Y R    +L V+D+        E + +  K++  HA+S + I+++GNK DL+       
Sbjct: 70  LYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRDAKLKTH 129

Query: 61  SMSIFQSLSGLLFKLI 76
              +F  L+G     +
Sbjct: 130 VAFLFAKLNGEPIIPL 145

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

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

 Score = 44.0 bits (104), Expect = 5e-07
 Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 5   AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVI-MMIGNKTDLKH 57
            +Y R     + VYDVT   +F ++  W+++   H+  N V  +++GNK DL+ 
Sbjct: 70  QHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLRE 123

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

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

 Score = 43.8 bits (104), Expect = 5e-07
 Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDL 55
            A+Y RGA   +LVYDVT   +FE++  W  +    A      N   +++GNK DL
Sbjct: 67  VAFY-RGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDL 121

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

 Score = 43.6 bits (103), Expect = 8e-07
 Identities = 23/53 (43%), Positives = 34/53 (64%), Gaps = 2/53 (3%)

Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDL 55
           +A++ R A+G LL++D+T   +F NV  W+  L  HA   N  I++IGNK DL
Sbjct: 81  TAFF-RDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVLIGNKADL 132

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

 Score = 43.3 bits (102), Expect = 1e-06
 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 1/41 (2%)

Query: 16  LVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDL 55
           +VYDVT   +F N SRW+  +  H+   +   +++GNK DL
Sbjct: 82  VVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCDL 122

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

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

 Score = 43.2 bits (102), Expect = 1e-06
 Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 2/52 (3%)

Query: 5   AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
            YY  G   A++++DVT   T++NV  W +DL    + NI I++ GNK D+K
Sbjct: 81  GYYIHGQC-AIIMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVK 130

Length = 219

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

 Score = 42.7 bits (101), Expect = 1e-06
 Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 2/54 (3%)

Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
             YY      A++++DVT   T++NV  W +DL      NI I++ GNK D+K 
Sbjct: 67  DGYYI-QGQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD 118

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

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

 Score = 42.9 bits (101), Expect = 1e-06
 Identities = 20/55 (36%), Positives = 36/55 (65%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKD-LGDHADSNIVIMMIGNKTDL 55
           I S YY RGA   ++V+D+T   + E+  +WL+D L ++  S++++ ++G K DL
Sbjct: 65  IASTYY-RGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDL 118

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

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

 Score = 42.2 bits (99), Expect = 3e-06
 Identities = 20/54 (37%), Positives = 34/54 (62%), Gaps = 2/54 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           ++  YY RGA  A++ YD+T S++FE    W+K+L  + + +  I + G K+DL
Sbjct: 66  MSRIYY-RGAKAAIVCYDLTDSSSFERAKFWVKEL-QNLEEHCKIYLCGTKSDL 117

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

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

 Score = 41.9 bits (98), Expect = 4e-06
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY +G   A++++DVT   T++NV  W +DL    + NI I++ GNK D+K
Sbjct: 60  LRDGYYIQGQC-AIIMFDVTARVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVK 112

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

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

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 20/51 (39%), Positives = 34/51 (66%), Gaps = 2/51 (3%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           YY +G   A++++DVT   T++NV  W +D+    + NI I+++GNK D+K
Sbjct: 78  YYIKGQC-AIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVK 126

Length = 215

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

 Score = 40.3 bits (95), Expect = 1e-05
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 4/52 (7%)

Query: 9   RGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKH 57
           R A G +LVY +T  ++F+ VS+ L  L       D  I ++++GNK DL H
Sbjct: 71  RWADGFVLVYSITDRSSFDVVSQ-LLQLIREIKKRDGEIPVILVGNKADLLH 121

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

 Score = 38.7 bits (91), Expect = 4e-05
 Identities = 14/42 (33%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           LL + V   ++FENV ++W  ++  +   N+ I+++G K DL
Sbjct: 76  LLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDL 116

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

 Score = 37.5 bits (88), Expect = 1e-04
 Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           Y R   G +LVY +T   +FE +    + +       ++ I+++GNK DL++
Sbjct: 67  YIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLEN 118

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

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 17/48 (35%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 13  GALLVYDVTKSTTFENVSRW---LKDLGDHADSNIVIMMIGNKTDLKH 57
           G +LVY +T  +TFE V R+   ++ + D + +++ IM++GNK D  +
Sbjct: 73  GFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVY 120

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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRW------LKDLGDHADSNIVIMMIGNKTDLKH 57
           Y R   G LLVY +T   +FE + ++      +KD       ++ I+++GNK DL+ 
Sbjct: 68  YMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKD-----RDDVPIVLVGNKCDLES 119

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

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

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 11/57 (19%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRW------LKDLGDHADSNIVIMMIGNKTDLKH 57
           Y R   G LLVY +T   +FE ++++      +KD       ++ I+++GNK DL++
Sbjct: 70  YMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKD-----RDDVPIVLVGNKCDLEN 121

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

 Score = 36.2 bits (84), Expect = 4e-04
 Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 11/57 (19%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRW------LKDLGDHADSNIVIMMIGNKTDLKH 57
           Y R   G LLV+ VT   +FE V ++      +KD  +       ++++GNK DL+H
Sbjct: 70  YMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFP-----MILVGNKADLEH 121

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

 Score = 36.3 bits (84), Expect = 4e-04
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 2/56 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I  AYY RGA   +LV+  T   +FE +  W K+  +    +I ++++  K DL  
Sbjct: 67  ITKAYY-RGAQACILVFSTTDRESFEAIESW-KEKVEAECGDIPMVLVQTKIDLLD 120

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

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

 Score = 36.0 bits (83), Expect = 4e-04
 Identities = 18/54 (33%), Positives = 37/54 (68%), Gaps = 2/54 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           ++++YY+  A   +LV+DVT+  T++N+S+W ++L ++    I  +++ NK DL
Sbjct: 65  MHASYYH-KAHACILVFDVTRKITYKNLSKWYEELREYRPE-IPCIVVANKIDL 116

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

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

 Score = 36.0 bits (83), Expect = 5e-04
 Identities = 17/52 (32%), Positives = 27/52 (51%)

Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            + Y RGA   +L YDV+   + E +      L D A+ + +  ++GNK DL
Sbjct: 61  GSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDL 112

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

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

 Score = 35.7 bits (83), Expect = 6e-04
 Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDL 55
           L+ + V    +FENV  +W  ++      N+ I+++G K DL
Sbjct: 74  LICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGTKLDL 114

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

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

 Score = 35.6 bits (82), Expect = 6e-04
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKHL 58
           Y R   G L VY +T  ++FE ++ + + +    D + V ++++GNK DL   
Sbjct: 73  YMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSE 125

Length = 189

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

 Score = 35.0 bits (81), Expect = 0.001
 Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 2/43 (4%)

Query: 15  LLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLK 56
           L+ Y V   T+ +NV  +W  ++ +H      I+++G KTDL+
Sbjct: 80  LICYSVDNPTSLDNVEDKWYPEV-NHFCPGTPIVLVGLKTDLR 121

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

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

 Score = 34.9 bits (81), Expect = 0.001
 Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 13  GALLVYDVTKSTTFENVSR-WLKDLGDHADSNIVIMMIGNKTDL 55
           G +LVY VT   +FE V   + K L      ++ I+++GNK+DL
Sbjct: 75  GYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDL 118

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

 Score = 33.2 bits (76), Expect = 0.004
 Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIM-MIGNKTDL 55
           Y R   G L V+ +    +FE++  + + +    DS+ V M ++GNK DL
Sbjct: 69  YMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDL 118

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	78
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.9
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.89
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.89
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.89
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.88
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.84
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.84
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.83
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.83
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.82
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.79
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.79
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.78
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.78
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.76
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.76
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.76
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.75
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.74
PTZ00099	176	rab6; Provisional	99.73
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.73
KOG0395	196	consensus Ras-related GTPase [General function pre	99.73
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.72
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.72
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.71
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.71
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.7
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.7
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.69
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.68
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.67
KOG0394	210	consensus Ras-related GTPase [General function pre	99.66
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.66
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.65
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.65
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.64
PLN00023	334	GTP-binding protein; Provisional	99.64
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.63
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.63
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.63
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.63
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.63
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.62
PLN03110	216	Rab GTPase; Provisional	99.62
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.62
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.62
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.61
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.61
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.61
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.61
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.61
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.61
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.61
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.61
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.6
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.6
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.6
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.59
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.59
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.59
PTZ00369	189	Ras-like protein; Provisional	99.59
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.59
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.58
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.58
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.58
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.57
PLN03108	210	Rab family protein; Provisional	99.57
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.57
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.57
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.56
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.56
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.55
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.55
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.54
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.54
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.54
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.54
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.53
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.52
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.52
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.51
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.51
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.51
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.51
PLN00223	181	ADP-ribosylation factor; Provisional	99.51
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.5
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.5
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.49
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.49
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.47
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.47
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.47
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.46
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.46
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.45
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.45
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.44
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.44
PTZ00133	182	ADP-ribosylation factor; Provisional	99.44
PLN03118	211	Rab family protein; Provisional	99.44
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.41
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.38
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.38
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.37
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.37
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.37
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.34
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.34
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.33
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.33
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.33
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.32
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.31
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.31
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.31
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.3
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.3
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.29
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.28
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.26
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.26
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.25
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.25
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.24
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.22
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.22
COG1100	219	GTPase SAR1 and related small G proteins [General	99.21
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.2
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.19
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.18
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.13
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.13
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.12
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.04
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.98
PRK12299	335	obgE GTPase CgtA; Reviewed	98.97
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.93
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	98.92
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.91
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	98.88
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	98.86
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.85
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.84
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.83
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.81
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.81
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.81
KOG1673	205	consensus Ras GTPases [General function prediction	98.78
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.76
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	98.71
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.7
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.66
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.64
PRK11058	426	GTPase HflX; Provisional	98.64
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	98.63
PRK12289	352	GTPase RsgA; Reviewed	98.6
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.53
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.46
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.44
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	98.43
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.42
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.4
PRK03003	472	GTP-binding protein Der; Reviewed	98.38
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.37
PRK12297	424	obgE GTPase CgtA; Reviewed	98.37
PRK03003	472	GTP-binding protein Der; Reviewed	98.37
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.31
COG2229	187	Predicted GTPase [General function prediction only	98.29
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.29
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.26
PRK00098	298	GTPase RsgA; Reviewed	98.23
PRK12288	347	GTPase RsgA; Reviewed	98.23
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.21
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.21
PRK12298	390	obgE GTPase CgtA; Reviewed	98.2
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.17
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.14
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.11
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	98.1
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.1
PRK04213	201	GTP-binding protein; Provisional	98.09
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.09
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.08
PRK12296	500	obgE GTPase CgtA; Reviewed	98.04
cd00881	189	GTP_translation_factor GTP translation factor fami	98.04
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.03
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.01
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.97
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	97.94
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.9
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	97.89
PRK00093	435	GTP-binding protein Der; Reviewed	97.89
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.88
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.88
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.87
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.86
PRK15494	339	era GTPase Era; Provisional	97.86
PRK05433	600	GTP-binding protein LepA; Provisional	97.83
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.75
PRK00093	435	GTP-binding protein Der; Reviewed	97.72
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.68
PRK04004	586	translation initiation factor IF-2; Validated	97.68
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.68
CHL00189	742	infB translation initiation factor 2; Provisional	97.65
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.64
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.63
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.62
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	97.61
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	97.58
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.57
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.55
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.52
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	97.51
PRK13351	687	elongation factor G; Reviewed	97.51
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.5
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.48
PRK00089	292	era GTPase Era; Reviewed	97.47
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.46
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	97.46
PRK05306	787	infB translation initiation factor IF-2; Validated	97.46
PRK14845	1049	translation initiation factor IF-2; Provisional	97.37
PRK12317	425	elongation factor 1-alpha; Reviewed	97.28
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.27
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.25
PRK10218	607	GTP-binding protein; Provisional	97.17
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	97.17
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.13
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.05
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.04
COG2262	411	HflX GTPases [General function prediction only]	97.04
cd01896	233	DRG The developmentally regulated GTP-binding prot	96.99
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	96.99
PRK04000	411	translation initiation factor IF-2 subunit gamma;	96.93
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	96.9
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.9
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	96.9
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	96.86
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.84
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	96.84
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	96.77
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	96.73
PRK13796	365	GTPase YqeH; Provisional	96.71
PRK12740	668	elongation factor G; Reviewed	96.65
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	96.65
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.59
PLN00043	447	elongation factor 1-alpha; Provisional	96.43
PRK09563	287	rbgA GTPase YlqF; Reviewed	96.43
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	96.33
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	96.28
COG1084	346	Predicted GTPase [General function prediction only	96.28
PRK01889	356	GTPase RsgA; Reviewed	96.26
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	96.24
PRK13768	253	GTPase; Provisional	96.19
TIGR00485	394	EF-Tu translation elongation factor TU. This align	96.16
COG1160	444	Predicted GTPases [General function prediction onl	95.9
PRK12736	394	elongation factor Tu; Reviewed	95.86
KOG4273	418	consensus Uncharacterized conserved protein [Funct	95.76
PRK09866	741	hypothetical protein; Provisional	95.75
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	95.75
COG0486	454	ThdF Predicted GTPase [General function prediction	95.6
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	95.6
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	95.42
KOG0090	238	consensus Signal recognition particle receptor, be	95.33
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	95.33
COG0536	369	Obg Predicted GTPase [General function prediction	95.31
PRK12739	691	elongation factor G; Reviewed	95.28
KOG3886	295	consensus GTP-binding protein [Signal transduction	94.94
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.87
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	94.86
KOG0082	354	consensus G-protein alpha subunit (small G protein	94.67
PRK12735	396	elongation factor Tu; Reviewed	94.67
PRK00007	693	elongation factor G; Reviewed	94.3
PLN03126	478	Elongation factor Tu; Provisional	94.14
CHL00071	409	tufA elongation factor Tu	93.91
COG1159	298	Era GTPase [General function prediction only]	93.88
PTZ00416	836	elongation factor 2; Provisional	93.85
PLN00116	843	translation elongation factor EF-2 subunit; Provis	93.78
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	93.72
cd03110	179	Fer4_NifH_child This protein family's function is	93.69
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	93.65
PRK00049	396	elongation factor Tu; Reviewed	93.48
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	93.23
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	93.09
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	92.96
PLN03127	447	Elongation factor Tu; Provisional	92.75
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	92.73
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	92.65
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	92.63
PRK07560	731	elongation factor EF-2; Reviewed	92.48
COG1161	322	Predicted GTPases [General function prediction onl	92.25
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	92.21
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	91.74
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	91.67
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	91.35
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	91.28
KOG0462	650	consensus Elongation factor-type GTP-binding prote	90.85
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	90.39
TIGR00101	199	ureG urease accessory protein UreG. This model rep	90.35
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	90.25
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	90.25
COG1162	301	Predicted GTPases [General function prediction onl	89.7
KOG2484	435	consensus GTPase [General function prediction only	89.42
COG1149	284	MinD superfamily P-loop ATPase containing an inser	89.28
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	88.94
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	88.47
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	87.88
KOG1145	683	consensus Mitochondrial translation initiation fac	87.39
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	86.79
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	85.94
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	85.69
COG0218	200	Predicted GTPase [General function prediction only	85.26
COG1160	444	Predicted GTPases [General function prediction onl	85.17
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	84.59
PF14784	126	ECIST_Cterm: C-terminal domain of the ECSIT protei	83.71
COG3523	1188	IcmF Type VI protein secretion system component Va	83.42
PF08468	155	MTS_N: Methyltransferase small domain N-terminal;	83.38
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	82.0

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

Probab=99.90  E-value=3.8e-24  Score=128.56  Aligned_cols=70  Identities=36%  Similarity=0.625  Sum_probs=63.6

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGL   71 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~   71 (78)
                      |++++|| |+|||+|+|||+|+++||+++..|+.++.++..+++|++|||||+|+.+.+.|+...++..+.
T Consensus        73 tit~syY-R~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~  142 (205)
T KOG0084|consen   73 TITSSYY-RGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFAD  142 (205)
T ss_pred             hhhHhhc-cCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHH
Confidence            4678999 999999999999999999999999999999998889999999999999999999776654443

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=6.2e-24  Score=128.59  Aligned_cols=76  Identities=37%  Similarity=0.718  Sum_probs=68.4

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      +++++|| |+|+++++|||+++..||+++..|++.++++.++++|++|||||+||.++|+|+.+.++..+..+.+.|
T Consensus        76 ti~~sYy-rgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F  151 (207)
T KOG0078|consen   76 TITTAYY-RGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKF  151 (207)
T ss_pred             HHHHHHH-hhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeE
Confidence            3678999 999999999999999999999999999999998899999999999999999999877777666665554

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

Probab=99.89  E-value=1.8e-23  Score=126.80  Aligned_cols=77  Identities=58%  Similarity=0.886  Sum_probs=70.5

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCcccccccC
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI   78 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f~   78 (78)
                      ++++.|| |+|.|+++|||+|++.||+++..|+.++++|.+++++++|||||+||.+.|.|+.+.++..+....+.|+
T Consensus        78 AitSaYY-rgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~  154 (222)
T KOG0087|consen   78 AITSAYY-RGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFL  154 (222)
T ss_pred             cccchhh-cccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEE
Confidence            4678999 9999999999999999999999999999999999999999999999999999998888887776666653

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

Probab=99.89  E-value=1.2e-23  Score=125.82  Aligned_cols=77  Identities=40%  Similarity=0.703  Sum_probs=72.5

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCcccccccC
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI   78 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f~   78 (78)
                      |++++|| |+|.|++||||+++++||+.+..|+.+++++..+++.++|+|||+||...|.|+++.++..+.+..++|+
T Consensus        70 sv~~syY-r~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifm  146 (216)
T KOG0098|consen   70 SVTRSYY-RGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFM  146 (216)
T ss_pred             HHHHHHh-ccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceee
Confidence            4678999 9999999999999999999999999999999879999999999999999999999999999988888875

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

Probab=99.88  E-value=1.1e-22  Score=121.94  Aligned_cols=67  Identities=37%  Similarity=0.619  Sum_probs=61.5

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ||.|+|| |||+++|+|||+|+.+||..++.|+.++++..++++.+.|||||+||.+.|.|+...++.
T Consensus        69 slapMYy-RgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~  135 (200)
T KOG0092|consen   69 SLAPMYY-RGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQA  135 (200)
T ss_pred             cccccee-cCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHH
Confidence            5789999 999999999999999999999999999999998999999999999999989888554443

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

Probab=99.84  E-value=3.6e-21  Score=115.94  Aligned_cols=76  Identities=29%  Similarity=0.500  Sum_probs=67.4

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCC-CCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      +|.|+|+ |+++++|+|||++++.||+++.+|++.++...++ ++.++|||||.||.++|+++.+.++..+.+++..|
T Consensus        86 slipsY~-Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f  162 (221)
T KOG0094|consen   86 SLIPSYI-RDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEF  162 (221)
T ss_pred             hhhhhhc-cCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEE
Confidence            5789999 9999999999999999999999999999877754 58899999999999999999888877666666554

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.84  E-value=5.7e-21  Score=111.22  Aligned_cols=64  Identities=31%  Similarity=0.623  Sum_probs=58.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++..|| |+|+|+|++||+++.+||++++.|..+++..+-.++|+++|||||||..+|.++.+..
T Consensus        86 iTTayy-RgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g  149 (193)
T KOG0093|consen   86 ITTAYY-RGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERG  149 (193)
T ss_pred             HHHHHh-hccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHH
Confidence            578899 9999999999999999999999999999988778999999999999999999985443

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.83  E-value=6e-21  Score=112.40  Aligned_cols=66  Identities=33%  Similarity=0.636  Sum_probs=60.7

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      +|.|.|| |+++|+++|||+||++||+.++.|..+++...+..+.+++||||+||+++|+|+...+.
T Consensus        77 ALGPIYY-RgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe  142 (218)
T KOG0088|consen   77 ALGPIYY-RGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAE  142 (218)
T ss_pred             ccCceEE-eCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHH
Confidence            4678999 99999999999999999999999999999998888999999999999999999855443

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

Probab=99.83  E-value=2.4e-21  Score=114.11  Aligned_cols=77  Identities=34%  Similarity=0.535  Sum_probs=69.3

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhccCcccccccC
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI   78 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f~   78 (78)
                      +|+++|| |+|+|+|+|||+|+++||.++..|.+++...+ .+++..++||||+|-+.+|.|+++.+.-.+...+++|+
T Consensus        75 tLTpSyy-RgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFi  152 (209)
T KOG0080|consen   75 TLTPSYY-RGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFI  152 (209)
T ss_pred             ccCHhHh-ccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEE
Confidence            5889999 99999999999999999999999999998877 47899999999999888899998888777777777664

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.82  E-value=1.4e-20  Score=110.41  Aligned_cols=76  Identities=38%  Similarity=0.617  Sum_probs=68.0

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      |.+++|| |||.|.++|||+|+++||+.+..|+..++...++++.++++|||.||.++|+|+.+.+...+.+-++.|
T Consensus        73 SVtRsYY-RGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~f  148 (214)
T KOG0086|consen   73 SVTRSYY-RGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMF  148 (214)
T ss_pred             HHHHHHh-ccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceee
Confidence            3568999 999999999999999999999999999999988999999999999999999999887777666555544

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.79  E-value=8.7e-20  Score=106.43  Aligned_cols=66  Identities=33%  Similarity=0.616  Sum_probs=59.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      ++..|| |+.+++++|||+|+.+||.+++.|+++++.++ +++|.++||||.|+.+.|.|....+...
T Consensus        73 itstyy-rgthgv~vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~  138 (198)
T KOG0079|consen   73 ITSTYY-RGTHGVIVVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAF  138 (198)
T ss_pred             HHHHHc-cCCceEEEEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHH
Confidence            567899 99999999999999999999999999999998 6899999999999998888875555443

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.79  E-value=1.3e-20  Score=108.50  Aligned_cols=77  Identities=29%  Similarity=0.543  Sum_probs=68.9

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCcccccccC
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIFI   78 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f~   78 (78)
                      |.+..|| |+||+.+++||++++.||++++.|+.++.+.....+.+.++|||+|+.++|.|++..++-.+..|.+.||
T Consensus        62 svt~ayy-rda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfm  138 (192)
T KOG0083|consen   62 SVTHAYY-RDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFM  138 (192)
T ss_pred             hhhHhhh-cccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCce
Confidence            4678999 9999999999999999999999999999999877889999999999999999997777777666777664

>cd04120 Rab12 Rab12 subfamily

Probab=99.78  E-value=4.7e-19  Score=107.87  Aligned_cols=64  Identities=36%  Similarity=0.634  Sum_probs=56.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|| ++|+++|+|||+++++||++++.|+..+++...+++|+++||||+||.+.++++...+
T Consensus        65 l~~~y~-~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~  128 (202)
T cd04120          65 ITSAYY-RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQG  128 (202)
T ss_pred             HHHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHH
Confidence            567899 9999999999999999999999999998877667899999999999988788775444

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=99.78  E-value=4.3e-19  Score=107.05  Aligned_cols=63  Identities=32%  Similarity=0.652  Sum_probs=55.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|| ++||++++|||+++++||++++.|++++.++. +++|++|||||+||.+.+.++...+
T Consensus        71 l~~~~~-~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~  133 (189)
T cd04121          71 IFRSYS-RGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQA  133 (189)
T ss_pred             HHHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHH
Confidence            456789 99999999999999999999999999998776 6899999999999988777764443

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

>cd04133 Rop_like Rop subfamily

Probab=99.76  E-value=1.3e-18  Score=103.93  Aligned_cols=56  Identities=30%  Similarity=0.599  Sum_probs=50.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++.|| ++|+++|+|||+++++||+++ +.|+.++++.. +++|++|||||+||.+.+
T Consensus        65 ~~~~~~-~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~  121 (176)
T cd04133          65 LRPLSY-RGADVFVLAFSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDK  121 (176)
T ss_pred             cchhhc-CCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccCh
Confidence            567899 999999999999999999999 78999998775 679999999999997653

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,

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=3.2e-19  Score=105.18  Aligned_cols=76  Identities=32%  Similarity=0.520  Sum_probs=66.3

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      |++..|| |+|.|++++||+|++.||-++++|+.+++-+. ..+..++++|||+||.+.|+|++..+...+..+.+.|
T Consensus        82 SLTTAFf-RDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPY  158 (219)
T KOG0081|consen   82 SLTTAFF-RDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPY  158 (219)
T ss_pred             HHHHHHH-HhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCe
Confidence            5678899 99999999999999999999999999998876 4677899999999999999999777766666665554

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.76  E-value=7.6e-19  Score=103.87  Aligned_cols=76  Identities=29%  Similarity=0.580  Sum_probs=64.7

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-C-CCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-S-NIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~-~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      |++.+|| |++-|+++|||++|++||+.++.|..+...+.+ | .+...|||.|+||...|+|+.+.++..+..-++.|
T Consensus        73 sitksyy-rnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~F  150 (213)
T KOG0091|consen   73 SITKSYY-RNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAF  150 (213)
T ss_pred             HHHHHHh-hcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceE
Confidence            5788999 999999999999999999999999999987774 4 45567999999999999999777776665555544

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.75  E-value=2.7e-18  Score=103.00  Aligned_cols=54  Identities=20%  Similarity=0.594  Sum_probs=49.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++||++++|||+++++||+++ ..|++++++.. ++.|++|||||+||.+
T Consensus        69 ~~~~~~-~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~  123 (182)
T cd04172          69 VRPLSY-PDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT  123 (182)
T ss_pred             hhhhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhc
Confidence            567899 999999999999999999998 89999998876 6799999999999964

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

>cd04131 Rnd Rnd subfamily

Probab=99.74  E-value=4.5e-18  Score=101.59  Aligned_cols=54  Identities=22%  Similarity=0.612  Sum_probs=49.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++|+++++|||+++++||+++ ..|+.++++.. +++|++|||||+||.+
T Consensus        65 ~~~~~~-~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~  119 (178)
T cd04131          65 VRPLCY-PDSDAVLICFDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRT  119 (178)
T ss_pred             cchhhc-CCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhc
Confidence            567899 999999999999999999996 89999998876 6899999999999964

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=99.73  E-value=1e-17  Score=100.09  Aligned_cols=63  Identities=32%  Similarity=0.644  Sum_probs=54.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|| ++||++|+|||+++++||+.+..|+..+.+..++++|++|||||+||.+.+.++...
T Consensus        45 ~~~~~~-~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~e  107 (176)
T PTZ00099         45 LIPSYI-RDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEE  107 (176)
T ss_pred             ccHHHh-CCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCCCHHH
Confidence            467789 999999999999999999999999999976655679999999999998766666433

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.73  E-value=9.4e-18  Score=102.26  Aligned_cols=61  Identities=25%  Similarity=0.416  Sum_probs=52.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-------------------CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-------------------DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-------------------~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|| ++++++|+|||+++++||++++.|+.++....                   ++++|++|||||+||.++|.++
T Consensus        70 l~~~~y-r~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~  148 (202)
T cd04102          70 TRAVFY-NQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESS  148 (202)
T ss_pred             HHHHHh-CcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccc
Confidence            467899 99999999999999999999999999996531                   2579999999999998777555


Q ss_pred             H
Q 038356           63 S   63 (78)
Q Consensus        63 ~   63 (78)
                      .
T Consensus       149 ~  149 (202)
T cd04102         149 G  149 (202)
T ss_pred             h
Confidence            3

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.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.73  E-value=7.4e-18  Score=102.38  Aligned_cols=75  Identities=23%  Similarity=0.351  Sum_probs=62.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhccCccccccc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKLIF   77 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~~f   77 (78)
                      +...|. +++||+++||+++++.||+.++.++..+.+... ..+|+++||||+||...|+|+...++..+..+++.|
T Consensus        67 ~~~~~~-~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f  142 (196)
T KOG0395|consen   67 MRDLYI-RNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAF  142 (196)
T ss_pred             HHHHhh-ccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcE
Confidence            456788 999999999999999999999999999966543 668999999999999999999877555555555444

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.72  E-value=1.8e-17  Score=100.42  Aligned_cols=54  Identities=19%  Similarity=0.418  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++||++++|||+++++||++++ .|.+++++.. +++|+++||||+||.+
T Consensus        80 ~~~~~~-~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~  134 (195)
T cd01873          80 DRRFAY-GRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRY  134 (195)
T ss_pred             hhcccC-CCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccc
Confidence            356789 9999999999999999999996 6999998765 6799999999999964

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.

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

Probab=99.72  E-value=6.7e-18  Score=98.85  Aligned_cols=67  Identities=27%  Similarity=0.571  Sum_probs=61.4

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      |++++|| |.|+++|+|||++=++||+.+.+|+.++++..+..+..++||||.|+.+.|++++..++.
T Consensus        71 sitqsyy-rsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigee  137 (213)
T KOG0095|consen   71 SITQSYY-RSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEE  137 (213)
T ss_pred             HHHHHHh-hhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHH
Confidence            5788999 999999999999999999999999999999988889999999999999999998665544

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.71  E-value=1.7e-17  Score=103.02  Aligned_cols=54  Identities=26%  Similarity=0.572  Sum_probs=48.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++|+++++|||+++++||+++ ..|+.++++.. ++.|++|||||+||.+
T Consensus        77 ~~~~~~-~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~  131 (232)
T cd04174          77 VRPLCY-SDSDAVLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRT  131 (232)
T ss_pred             HHHHHc-CCCcEEEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc
Confidence            467899 999999999999999999985 89999998776 6789999999999964

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.

>cd01875 RhoG RhoG subfamily

Probab=99.71  E-value=2.9e-17  Score=98.79  Aligned_cols=56  Identities=21%  Similarity=0.565  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++.|| ++||++|+|||+++++||+++. .|...+.... +++|++|||||+||.+.+
T Consensus        67 l~~~~~-~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~  123 (191)
T cd01875          67 LRTLSY-PQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDA  123 (191)
T ss_pred             hhhhhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcCh
Confidence            567899 9999999999999999999996 6998887665 679999999999997653

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.70  E-value=3.5e-17  Score=95.90  Aligned_cols=61  Identities=43%  Similarity=0.809  Sum_probs=53.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|| ++++++++|||+++++||+.+..|+..+.....++.|+++||||+|+.+.+.++.
T Consensus        67 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~  127 (166)
T cd04122          67 VTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTY  127 (166)
T ss_pred             HHHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCH
Confidence            346788 9999999999999999999999999998776667899999999999987776653

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.70  E-value=4.1e-17  Score=95.53  Aligned_cols=64  Identities=28%  Similarity=0.575  Sum_probs=55.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ +++|++++|||+++++||+.+..|++.+....+.++|+++||||.|+.+.+.+....+
T Consensus        65 ~~~~~~-~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~  128 (161)
T cd04117          65 ITKQYY-RRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQG  128 (161)
T ss_pred             hHHHHh-cCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHH
Confidence            456788 9999999999999999999999999999877656799999999999988777654333

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.69  E-value=4.1e-17  Score=96.71  Aligned_cols=64  Identities=23%  Similarity=0.400  Sum_probs=54.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|| ++++++++|||+++++||+.+..|...+.+.. .+++|+++||||+|+.+.++++...+
T Consensus        66 l~~~~~-~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~  130 (172)
T cd04141          66 MRDQYM-RCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEG  130 (172)
T ss_pred             HhHHHh-hcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHH
Confidence            567889 99999999999999999999999988887654 36799999999999987777764433

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

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

Probab=99.68  E-value=5.1e-17  Score=94.50  Aligned_cols=64  Identities=28%  Similarity=0.563  Sum_probs=56.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.++ ++++++|+|||+++++||+++..|++.+....+.++|++|+|||.|+.+.+.++...++
T Consensus        65 ~~~~~-~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~  128 (162)
T PF00071_consen   65 RDIFY-RNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQ  128 (162)
T ss_dssp             HHHHH-TTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHH
T ss_pred             ccccc-cccccccccccccccccccccccccccccccccccccceeeeccccccccccchhhHHH
Confidence            45678 99999999999999999999999999999888667999999999999887877754433

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 ....

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.67  E-value=4.7e-17  Score=94.74  Aligned_cols=71  Identities=37%  Similarity=0.602  Sum_probs=62.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCccc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLF   73 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f   73 (78)
                      ++++|| |+|.+.++|||++++++++.+..|+...+....++..++++|||.||+..|.|+-+.++..+..-
T Consensus        76 vtrsyy-rgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeen  146 (215)
T KOG0097|consen   76 VTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEEN  146 (215)
T ss_pred             HHHHHh-ccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhc
Confidence            467899 99999999999999999999999999998887899999999999999999999866555544433

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=99.66  E-value=2.4e-16  Score=94.53  Aligned_cols=67  Identities=30%  Similarity=0.487  Sum_probs=56.8

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CCCeEEEEeeCCCCCCC--CCchHHHHhc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKHL--PTSMSIFQSL   68 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~~lvgnK~Dl~~~--~~v~~~~~~~   68 (78)
                      ||...+| ||||++++|||+++++||+++..|.+++....+    ...|.||+|||+|+.+.  |+|+...++.
T Consensus        73 sLg~aFY-RgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~  145 (210)
T KOG0394|consen   73 SLGVAFY-RGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQT  145 (210)
T ss_pred             hccccee-cCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHH
Confidence            4667899 999999999999999999999999999976653    45899999999999763  8888655544

>cd04127 Rab27A Rab27a subfamily

Probab=99.66  E-value=2.1e-16  Score=93.42  Aligned_cols=62  Identities=35%  Similarity=0.646  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ +++|++++|||+++++||.+++.|+..+.... .++.|+++||||+|+.+.+.++..
T Consensus        79 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~  141 (180)
T cd04127          79 LTTAFF-RDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEE  141 (180)
T ss_pred             HHHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHH
Confidence            356788 99999999999999999999999999997764 367899999999999877666543

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.65  E-value=3.2e-16  Score=96.63  Aligned_cols=55  Identities=33%  Similarity=0.599  Sum_probs=48.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++++++|+|||+++++||+++..|+..+.+...+++|++|||||+||.+
T Consensus        60 l~~~~~-~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~  114 (220)
T cd04126          60 LGSMYC-RGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE  114 (220)
T ss_pred             hHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            456789 9999999999999999999998888887766557799999999999975

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.65  E-value=3.1e-16  Score=93.19  Aligned_cols=55  Identities=22%  Similarity=0.529  Sum_probs=48.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|| ++++++|+|||+++++||+++. .|..+++... +++|+++||||+|+.+.
T Consensus        65 ~~~~~~-~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~  120 (175)
T cd01874          65 LRPLSY-PQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD  120 (175)
T ss_pred             hhhhhc-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhC
Confidence            456788 9999999999999999999996 6999887765 67999999999999654

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

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

Probab=99.64  E-value=7.5e-16  Score=93.71  Aligned_cols=58  Identities=34%  Similarity=0.617  Sum_probs=51.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|| ++++++|+|||+++++||++++.|+.++++.. +++|++|||||+|+.. +.+.
T Consensus        60 l~~~~~-~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~  117 (200)
T smart00176       60 LRDGYY-IQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVK  117 (200)
T ss_pred             hhHHHh-cCCCEEEEEEECCChHHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCC
Confidence            567899 99999999999999999999999999998876 6899999999999964 3443

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.64  E-value=6.5e-16  Score=99.74  Aligned_cols=56  Identities=21%  Similarity=0.456  Sum_probs=49.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC------------CCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD------------SNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~------------~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|| ++++++|+|||+++++||+++..|++++.....            .++|++|||||+||.++
T Consensus        99 L~~~yy-r~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~  166 (334)
T PLN00023         99 CRSLFY-SQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPK  166 (334)
T ss_pred             hhHHhc-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccc
Confidence            567899 999999999999999999999999999987631            25899999999999754

>cd04144 Ras2 Ras2 subfamily

Probab=99.63  E-value=5e-16  Score=93.16  Aligned_cols=62  Identities=27%  Similarity=0.459  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|| +++|++++|||+++++||+++..|+..+.+..   .++.|+++||||+|+.+.+.++..
T Consensus        63 ~~~~~~-~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~  127 (190)
T cd04144          63 LRDQWI-REGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTE  127 (190)
T ss_pred             HHHHHH-HhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHH
Confidence            456788 99999999999999999999999999886654   257899999999999776666543

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.63  E-value=8e-16  Score=90.12  Aligned_cols=60  Identities=33%  Similarity=0.682  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..++ ++++++++|||+++++||+.+..|++.+.+...++.|+++||||+|+.+.+.+.
T Consensus        66 ~~~~~~-~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~  125 (165)
T cd01865          66 ITTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVS  125 (165)
T ss_pred             HHHHHc-cCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccC
Confidence            356788 999999999999999999999999999987665689999999999997766554

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.63  E-value=8.3e-16  Score=90.22  Aligned_cols=59  Identities=39%  Similarity=0.871  Sum_probs=52.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..++ +++|++++|||+++++||+.+..|+..+.+....+.|+++||||+|+.+.+.+.
T Consensus        69 ~~~~~-~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~  127 (167)
T cd01867          69 TTAYY-RGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVS  127 (167)
T ss_pred             HHHHh-CCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCC
Confidence            45678 999999999999999999999999999988766789999999999998766554

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.63  E-value=6.2e-16  Score=90.74  Aligned_cols=61  Identities=11%  Similarity=0.266  Sum_probs=51.4

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCC--CCCCchHHH
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLK--HLPTSMSIF   65 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~--~~~~v~~~~   65 (78)
                      ..|+ +++|++++|||+++++||+++..|++++..... +++|+++||||.||.  ..+.++...
T Consensus        60 ~~~~-~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~  123 (158)
T cd04103          60 AQFA-SWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDAR  123 (158)
T ss_pred             hhHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHH
Confidence            3578 999999999999999999999999999977653 679999999999985  346666443

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.63  E-value=9e-16  Score=93.73  Aligned_cols=62  Identities=35%  Similarity=0.580  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC---CCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD---SNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +.+.|| +++|++|+|||+++++||+++..|...+.+...   .++|+++||||+|+.+.+.++..
T Consensus        66 l~~~~~-~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~  130 (215)
T cd04109          66 MLDKYI-YGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDD  130 (215)
T ss_pred             HHHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHH
Confidence            356788 999999999999999999999999999987652   45789999999999877766643

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.62  E-value=9e-16  Score=89.10  Aligned_cols=61  Identities=21%  Similarity=0.444  Sum_probs=52.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ ++++++++|||+++++||+.+..|...+.+.. .++.|+++||||+|+.+.+.+..
T Consensus        65 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~  126 (163)
T cd04136          65 MRDLYI-KNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSR  126 (163)
T ss_pred             HHHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecH
Confidence            456788 99999999999999999999999999987654 36799999999999977666553

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.62  E-value=8.1e-16  Score=94.17  Aligned_cols=65  Identities=66%  Similarity=1.031  Sum_probs=56.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      +++.|+ ++++++++|||+++++||+++..|+..+.+..+.++|+++||||+|+.+.+.+++....
T Consensus        77 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~  141 (216)
T PLN03110         77 ITSAYY-RGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQ  141 (216)
T ss_pred             HHHHHh-CCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHH
Confidence            356788 99999999999999999999999999998876678999999999999877777654333

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.62  E-value=8.4e-16  Score=90.50  Aligned_cols=63  Identities=25%  Similarity=0.575  Sum_probs=54.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|+ +++|++++|||+++++||+.+..|..++.... ..++|+++||||+|+.+.++++...
T Consensus        68 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~  131 (170)
T cd04115          68 MVQHYY-RNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDL  131 (170)
T ss_pred             hHHHhh-cCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHH
Confidence            356788 99999999999999999999999999997765 3679999999999998877766433

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=99.62  E-value=1e-15  Score=89.15  Aligned_cols=60  Identities=20%  Similarity=0.414  Sum_probs=51.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ +++|++++|||+++++||+++..|...+.+.. ..+.|+++||||+|+.+.+.+.
T Consensus        65 ~~~~~~-~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~  125 (163)
T cd04176          65 MRDLYI-KNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVS  125 (163)
T ss_pred             hHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccC
Confidence            467788 99999999999999999999999999987654 3679999999999997655554

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.61  E-value=1e-15  Score=89.33  Aligned_cols=61  Identities=21%  Similarity=0.435  Sum_probs=52.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ +++|++++|||+++++||+.+.+|...+.+.. .++.|+++||||+|+.+.+.++.
T Consensus        65 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~  126 (164)
T cd04175          65 MRDLYM-KNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGK  126 (164)
T ss_pred             HHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcH
Confidence            456788 99999999999999999999999999987654 36799999999999987666553

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.61  E-value=1.5e-15  Score=91.71  Aligned_cols=60  Identities=40%  Similarity=0.736  Sum_probs=50.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|| ++++++|+|||+++++||+++..|+.++....    ..++|+++||||+|+.+.+.++
T Consensus        66 ~~~~~~-~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~  129 (201)
T cd04107          66 MTRVYY-RGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKD  129 (201)
T ss_pred             hHHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccC
Confidence            467889 99999999999999999999999999886542    2678999999999997555544

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.61  E-value=1.3e-15  Score=89.02  Aligned_cols=59  Identities=41%  Similarity=0.767  Sum_probs=52.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ ++++++++|||+++++||+++..|+..+++...++.|+++||||+|+.+.+.+.
T Consensus        68 ~~~~~-~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~  126 (166)
T cd01869          68 TSSYY-RGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVD  126 (166)
T ss_pred             HHHHh-CcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCC
Confidence            45788 999999999999999999999999999987765679999999999997766655

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.61  E-value=1.9e-15  Score=90.27  Aligned_cols=62  Identities=40%  Similarity=0.715  Sum_probs=53.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.++ +++|++++|||+++++||+++..|+.++......+.|++++|||+|+.+.+.++..
T Consensus        65 ~~~~~~-~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~  126 (188)
T cd04125          65 LNNSYY-RGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSN  126 (188)
T ss_pred             hHHHHc-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHH
Confidence            356788 99999999999999999999999999998776567999999999999877766543

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=99.61  E-value=1.6e-15  Score=93.65  Aligned_cols=54  Identities=19%  Similarity=0.541  Sum_probs=47.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| +++|++++|||+++++||+++ ..|..+++... +++|++|||||+||.+
T Consensus        65 l~~~~~-~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~  119 (222)
T cd04173          65 VRPLAY-PDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRT  119 (222)
T ss_pred             HhHHhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECccccc
Confidence            467889 999999999999999999999 67888776655 7899999999999965

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.61  E-value=1.8e-15  Score=89.88  Aligned_cols=55  Identities=25%  Similarity=0.542  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|+ +++|++|+|||+++++||+++. .|+..+.... +++|+++||||+||.+.
T Consensus        65 ~~~~~~-~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~  120 (174)
T cd01871          65 LRPLSY-PQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD  120 (174)
T ss_pred             hhhhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccC
Confidence            457789 9999999999999999999994 7998887665 68999999999999643

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.61  E-value=3.8e-15  Score=89.33  Aligned_cols=57  Identities=23%  Similarity=0.522  Sum_probs=50.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++.|| ++++++++|||+++++||+++. .|+..+.... ++.|+++||||+||.+.++
T Consensus        64 l~~~~~-~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~  121 (189)
T cd04134          64 LRSLSY-ADTDVIMLCFSVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARN  121 (189)
T ss_pred             cccccc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChh
Confidence            567889 9999999999999999999995 6999998765 6899999999999976553

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.

>cd01868 Rab11_like Rab11-like

Probab=99.61  E-value=2.2e-15  Score=87.91  Aligned_cols=60  Identities=73%  Similarity=1.179  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|||+++++||+++..|+..+.+....+.|+++||||+|+.+.+.+.
T Consensus        68 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~  127 (165)
T cd01868          68 ITSAYY-RGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP  127 (165)
T ss_pred             HHHHHH-CCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCC
Confidence            456788 999999999999999999999999999988775679999999999998766554

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.60  E-value=2.1e-15  Score=90.50  Aligned_cols=59  Identities=37%  Similarity=0.753  Sum_probs=52.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||+++++||+++..|+..+.+....++|+++||||+|+...+.+.
T Consensus        67 ~~~~~-~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~  125 (191)
T cd04112          67 THAYY-RDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVK  125 (191)
T ss_pred             hHHHc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccC
Confidence            45688 999999999999999999999999999988766689999999999997666554

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.60  E-value=4e-15  Score=91.37  Aligned_cols=54  Identities=37%  Similarity=0.681  Sum_probs=49.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| ++++++|+|||+++++||+++..|++++.+.. +++|+++||||+|+.+
T Consensus        78 ~~~~~~-~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~  131 (219)
T PLN03071         78 LRDGYY-IHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN  131 (219)
T ss_pred             hhHHHc-ccccEEEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhh
Confidence            457789 99999999999999999999999999998775 6799999999999964

>cd04140 ARHI_like ARHI subfamily

Probab=99.60  E-value=2.2e-15  Score=88.25  Aligned_cols=61  Identities=25%  Similarity=0.279  Sum_probs=51.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +..++ ++++++++|||+++++||++++.|++.+++..   .+++|+++||||+|+.+.+.+...
T Consensus        66 ~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~  129 (165)
T cd04140          66 QRLSI-SKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSN  129 (165)
T ss_pred             HHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHH
Confidence            45678 99999999999999999999999988886643   267999999999999876666543

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.59  E-value=2.7e-15  Score=87.14  Aligned_cols=60  Identities=28%  Similarity=0.587  Sum_probs=52.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ ++++++++|||+++++||+.+..|...+.... +++|+++||||.|+...+.++.
T Consensus        67 ~~~~~~-~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~  126 (162)
T cd04106          67 ITKAYY-RGAQACILVFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITN  126 (162)
T ss_pred             hHHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCH
Confidence            456788 99999999999999999999999999987665 6799999999999977666553

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.59  E-value=5.7e-15  Score=86.88  Aligned_cols=65  Identities=23%  Similarity=0.362  Sum_probs=55.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| +++|++++|||.+++.+|+.++.|+.++.... +++|+++||||+|+.+.+.+++.....
T Consensus        60 ~~~~~~-~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~  124 (164)
T cd04162          60 YWKRYL-SGSQGLIFVVDSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKEL  124 (164)
T ss_pred             HHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHh
Confidence            456789 99999999999999999999999998886554 689999999999998888776544443

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.

>cd04111 Rab39 Rab39 subfamily

Probab=99.59  E-value=3.6e-15  Score=91.10  Aligned_cols=63  Identities=33%  Similarity=0.663  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|| +++|++++|||+++++||+++..|+.++.+... ...|+++||||+|+.+.+.+....
T Consensus        68 ~~~~~~-~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~  131 (211)
T cd04111          68 ITRSYY-RNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREE  131 (211)
T ss_pred             HHHHHh-cCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHH
Confidence            346788 999999999999999999999999999977653 468899999999998766665433

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.59  E-value=3.5e-15  Score=89.44  Aligned_cols=61  Identities=23%  Similarity=0.470  Sum_probs=52.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ ++++++++|||+++++||+.+..|...+.+.. .+++|+++||||+|+.+.+.++.
T Consensus        69 l~~~~~-~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~  130 (189)
T PTZ00369         69 MRDQYM-RTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVST  130 (189)
T ss_pred             hHHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCH
Confidence            456789 99999999999999999999999999987654 35899999999999977666553

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.59  E-value=2.6e-15  Score=87.80  Aligned_cols=59  Identities=29%  Similarity=0.481  Sum_probs=50.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc--CCCCeEEEEeeCCCCCCCCCchH
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA--DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ..++ +++|++++|||+++++||+.++.|+..+.+..  ..+.|+++||||+|+.+.+.++.
T Consensus        66 ~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~  126 (165)
T cd04146          66 ERSI-RWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVST  126 (165)
T ss_pred             HHHH-HhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCH
Confidence            4678 99999999999999999999999999887754  35799999999999976666653

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.58  E-value=5.2e-15  Score=89.42  Aligned_cols=59  Identities=37%  Similarity=0.750  Sum_probs=52.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ ++++++++|||+++++||+.+..|+..+.... +..|+++||||+|+.+.+.+.
T Consensus        71 ~~~~~~-~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~  129 (199)
T cd04110          71 ITSTYY-RGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVE  129 (199)
T ss_pred             HHHHHh-CCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccC
Confidence            456788 99999999999999999999999999987765 679999999999998766655

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.58  E-value=6e-15  Score=86.23  Aligned_cols=59  Identities=37%  Similarity=0.813  Sum_probs=52.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..++ +++|++++|||+++++||+.++.|+..+......++|+++||||+|+.+.+.+.
T Consensus        69 ~~~~~-~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~  127 (165)
T cd01864          69 TQSYY-RSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVL  127 (165)
T ss_pred             HHHHh-ccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccC
Confidence            46788 999999999999999999999999999987665789999999999997766554

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.58  E-value=6.1e-15  Score=86.67  Aligned_cols=61  Identities=49%  Similarity=0.874  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+.++++...++.|+++||||.|+.+.+.++.
T Consensus        69 ~~~~~~-~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~  129 (168)
T cd01866          69 ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSY  129 (168)
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCH
Confidence            345688 9999999999999999999999999999877657899999999999976555543

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.57  E-value=1.7e-15  Score=90.94  Aligned_cols=59  Identities=31%  Similarity=0.527  Sum_probs=54.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|| |||++.++||+.||+.||+.+..|++.++..+ .++|.++|-||+||-+..+++
T Consensus        85 ItkAyy-rgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~  143 (246)
T KOG4252|consen   85 ITKAYY-RGAQASVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMD  143 (246)
T ss_pred             HHHHHh-ccccceEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcc
Confidence            567899 99999999999999999999999999998887 789999999999998776665

>PLN03108 Rab family protein; Provisional

Probab=99.57  E-value=6.8e-15  Score=89.70  Aligned_cols=62  Identities=50%  Similarity=0.891  Sum_probs=53.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.....++.|+++||||+|+.+.+.++..
T Consensus        71 ~~~~~~-~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~  132 (210)
T PLN03108         71 ITRSYY-RGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTE  132 (210)
T ss_pred             HHHHHh-ccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHH
Confidence            356788 99999999999999999999999999887766678999999999999877666543

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.57  E-value=8.2e-15  Score=85.11  Aligned_cols=60  Identities=35%  Similarity=0.699  Sum_probs=51.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-----CCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-----SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-----~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.++ ++++++|+|||+++++||+.+..|+.++.+...     ...|+++||||+|+.+++.+.
T Consensus        65 ~~~~~~-~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~  129 (168)
T cd04119          65 VRNEFY-KDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVS  129 (168)
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccC
Confidence            456788 999999999999999999999999999987653     469999999999997555444

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.

>cd04128 Spg1 Spg1p

Probab=99.57  E-value=5.7e-15  Score=88.42  Aligned_cols=53  Identities=21%  Similarity=0.496  Sum_probs=46.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +++.|+ ++|+++++|||+++++||+++..|++++.+..+...| ++||||+||.
T Consensus        65 ~~~~~~-~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~  117 (182)
T cd04128          65 MLPLVC-NDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLF  117 (182)
T ss_pred             hhHHHC-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhcc
Confidence            456788 9999999999999999999999999999877655677 6889999995

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.56  E-value=1.9e-14  Score=85.12  Aligned_cols=58  Identities=33%  Similarity=0.692  Sum_probs=49.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++.|| +++|++++|||+++++||+.+..|++++.+.. +.+.|+++||||.|+.+.+.
T Consensus        65 ~~~~~~-~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~  123 (170)
T cd04108          65 IASTYY-RGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQ  123 (170)
T ss_pred             hHHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcccc
Confidence            456788 99999999999999999999999999986543 45689999999999965543

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

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

Probab=99.56  E-value=8e-15  Score=86.16  Aligned_cols=55  Identities=25%  Similarity=0.523  Sum_probs=48.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.++ +++|++++|||+++++||+++. .|+..+.... ++.|+++||||+|+.+.
T Consensus        62 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~  117 (174)
T smart00174       62 LRPLSY-PDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLRED  117 (174)
T ss_pred             hchhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhC
Confidence            456788 9999999999999999999995 6999988765 68999999999999653

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.55  E-value=1.4e-14  Score=87.83  Aligned_cols=59  Identities=20%  Similarity=0.289  Sum_probs=50.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      .++ +++|++++|||+++++||+.+..|++.+.+..   .+++|+++||||+|+.+.+.++..
T Consensus        76 ~~~-~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~  137 (198)
T cd04142          76 RGL-RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRH  137 (198)
T ss_pred             hhh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHH
Confidence            457 89999999999999999999999999887654   367999999999999776665543

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.55  E-value=1.5e-14  Score=84.09  Aligned_cols=59  Identities=47%  Similarity=0.842  Sum_probs=52.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++.++ +++|++++|||++++++|+++..|+..++....+++|++++|||.|+.+.+.+.
T Consensus        66 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~  124 (161)
T cd04113          66 TRSYY-RGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVT  124 (161)
T ss_pred             HHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCC
Confidence            46678 999999999999999999999999999877766889999999999997666554

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

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

Probab=99.54  E-value=3.6e-14  Score=83.55  Aligned_cols=54  Identities=39%  Similarity=0.739  Sum_probs=49.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.+| +++|++|+|||+++++||++++.|+.++.+.. +++|+++||||+|+.+
T Consensus        65 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piiiv~nK~Dl~~  118 (166)
T cd00877          65 LRDGYY-IGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-GNIPIVLCGNKVDIKD  118 (166)
T ss_pred             ccHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhccc
Confidence            456788 99999999999999999999999999998876 4899999999999973

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.54  E-value=3.5e-14  Score=83.67  Aligned_cols=66  Identities=27%  Similarity=0.404  Sum_probs=55.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| ++++++++|||.+++++|++++.|+..+.+... .+.|+++||||+|+.+.+...+....+
T Consensus        59 ~~~~~~-~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~  125 (167)
T cd04161          59 IWVNYY-AEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYL  125 (167)
T ss_pred             HHHHHH-cCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhc
Confidence            356789 999999999999999999999999998876532 579999999999998877665555543

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.

>cd04148 RGK RGK subfamily

Probab=99.54  E-value=1.7e-14  Score=88.73  Aligned_cols=60  Identities=23%  Similarity=0.310  Sum_probs=51.4

Q ss_pred             ccchhc-CCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            4 SAYYNR-GALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         4 ~~y~~~-~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ..++ + ++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.+.++..
T Consensus        66 ~~~~-~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~  127 (221)
T cd04148          66 DSCM-QYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQ  127 (221)
T ss_pred             hHHh-hcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHH
Confidence            4556 7 9999999999999999999999999987764 367999999999999877776644

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

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

Probab=99.54  E-value=1.6e-14  Score=83.85  Aligned_cols=61  Identities=28%  Similarity=0.506  Sum_probs=51.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++++|+.+..|...+.+.. ..+.|++++|||+|+.+.+.+..
T Consensus        66 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~  127 (164)
T cd04145          66 MREQYM-RTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSR  127 (164)
T ss_pred             HHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecH
Confidence            356788 99999999999999999999999999887653 36799999999999977665553

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.53  E-value=2.5e-14  Score=83.24  Aligned_cols=60  Identities=30%  Similarity=0.565  Sum_probs=51.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +.+.++ +++|++++|||+++++||+.+..|+..+.... ++.|+++||||+|+.+.+++..
T Consensus        68 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~  127 (164)
T cd04101          68 MVSNYW-ESPSVFILVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTD  127 (164)
T ss_pred             HHHHHh-CCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCH
Confidence            345778 99999999999999999999999999987765 6799999999999977666554

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.52  E-value=2.6e-14  Score=85.10  Aligned_cols=55  Identities=27%  Similarity=0.533  Sum_probs=47.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|+ +++|++++|||+++++||+++. .|+..+.... ++.|+++||||+|+...
T Consensus        65 ~~~~~~-~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  120 (187)
T cd04132          65 LRPLSY-PDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKD  120 (187)
T ss_pred             HHHHhC-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhC
Confidence            345688 9999999999999999999995 6998887654 67999999999999654

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.52  E-value=2.6e-14  Score=83.18  Aligned_cols=60  Identities=27%  Similarity=0.511  Sum_probs=50.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.++ ++++++++|||+++++||+++..|...+.+.. ..+.|+++||||+|+.+.+.++
T Consensus        64 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~  124 (164)
T smart00173       64 MRDQYM-RTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVS  124 (164)
T ss_pred             HHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEc
Confidence            345678 99999999999999999999999998886654 3578999999999997766554

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.51  E-value=4.6e-14  Score=83.27  Aligned_cols=54  Identities=22%  Similarity=0.605  Sum_probs=47.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||+++++||+++ ..|+..++... ++.|++++|||+|+..
T Consensus        64 ~~~~~~-~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~  118 (173)
T cd04130          64 LRPLCY-PDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRT  118 (173)
T ss_pred             cccccc-CCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhcc
Confidence            456788 999999999999999999999 57998887654 5799999999999964

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,

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

Probab=99.51  E-value=6.9e-14  Score=83.00  Aligned_cols=66  Identities=21%  Similarity=0.335  Sum_probs=51.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| ++|+++|+|||++++++|+++..|+..+.... .+++|++|||||+||.+.....+.....
T Consensus        73 ~~~~~~-~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~  139 (175)
T smart00177       73 LWRHYY-TNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKL  139 (175)
T ss_pred             HHHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHh
Confidence            356789 99999999999999999999988887775432 2579999999999997655444444433

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).

>cd04116 Rab9 Rab9 subfamily

Probab=99.51  E-value=5.5e-14  Score=82.40  Aligned_cols=59  Identities=29%  Similarity=0.545  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|||+++++||+.+..|..++....    ..++|+++||||+|+. .+.+.
T Consensus        70 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~  132 (170)
T cd04116          70 LRTPFY-RGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVS  132 (170)
T ss_pred             hHHHHh-cCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccC
Confidence            456789 99999999999999999999999999886644    2568999999999996 34443

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

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.51  E-value=4.2e-14  Score=85.85  Aligned_cols=55  Identities=31%  Similarity=0.626  Sum_probs=50.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.-| .++|.++++|++.+++||+++ .+|+.+++.++ +++|++|||+|.||+++
T Consensus        69 lRplsY-~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d  124 (198)
T KOG0393|consen   69 LRPLSY-PQTDVFLLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDD  124 (198)
T ss_pred             ccccCC-CCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhC
Confidence            456778 999999999999999999999 88999999998 89999999999999854

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.51  E-value=7.9e-14  Score=83.36  Aligned_cols=67  Identities=18%  Similarity=0.294  Sum_probs=53.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      +++.|| +++|++|+|||++++++|+.+..|+..+... ..+++|++|+|||+|+.+.....+....++
T Consensus        77 ~~~~~~-~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~  144 (181)
T PLN00223         77 LWRHYF-QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLG  144 (181)
T ss_pred             HHHHHh-ccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhC
Confidence            456789 9999999999999999999998777766432 226799999999999987666555555544

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.50  E-value=9e-14  Score=86.96  Aligned_cols=60  Identities=18%  Similarity=0.264  Sum_probs=50.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh---------cCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH---------ADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~---------~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ +++|++|+|||+++++||+++..|.+++.+.         ...+.|+++||||+|+.+.+.+.
T Consensus        64 ~~~~~~-~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~  132 (247)
T cd04143          64 MRRLSI-LTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQ  132 (247)
T ss_pred             HHHHHh-ccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccC
Confidence            345678 9999999999999999999999999998653         22579999999999997655554

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.50  E-value=8.6e-14  Score=80.38  Aligned_cols=60  Identities=38%  Similarity=0.772  Sum_probs=52.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.++ +++|++++|||++++++++.+..|..++....+.+.|++++|||+|+.+.+.+.
T Consensus        65 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~  124 (162)
T cd04123          65 LGPIYY-RDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVS  124 (162)
T ss_pred             hhHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCC
Confidence            456788 999999999999999999999999999987765689999999999998666554

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.49  E-value=7.9e-14  Score=80.88  Aligned_cols=59  Identities=54%  Similarity=0.972  Sum_probs=51.6

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++.++ +++|++++|||+++++|++.+..|+..+.....+++|++++|||+|+...+.+.
T Consensus        66 ~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~  124 (164)
T smart00175       66 TSSYY-RGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVS  124 (164)
T ss_pred             HHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCC
Confidence            45678 999999999999999999999999999987766789999999999997655444

Rab GTPases are implicated in vesicle trafficking.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.49  E-value=1.3e-13  Score=80.60  Aligned_cols=61  Identities=16%  Similarity=0.308  Sum_probs=48.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|| +++|++++|||.++++||+++..|+..+... ...+.|++|+|||+|+.+.....+
T Consensus        60 ~~~~~~-~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~  121 (159)
T cd04150          60 LWRHYF-QNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAE  121 (159)
T ss_pred             HHHHHh-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHH
Confidence            356789 9999999999999999999998877766432 225689999999999976443333

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

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

Probab=99.47  E-value=9.7e-14  Score=80.16  Aligned_cols=55  Identities=22%  Similarity=0.520  Sum_probs=48.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ ++++++++|||++++++|+++..|...+.+.. ..+.|+++||||+|+.+
T Consensus        65 l~~~~~-~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~  120 (162)
T cd04138          65 MRDQYM-RTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA  120 (162)
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            456788 99999999999999999999999999987765 35799999999999965

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.47  E-value=1e-13  Score=81.87  Aligned_cols=56  Identities=23%  Similarity=0.262  Sum_probs=47.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++.|| +++|++++|||.++++||+.+..|+..+...  .++|+++||||+|+.+.+.
T Consensus        70 ~~~~~~-~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~  125 (169)
T cd01892          70 LNDAEL-AACDVACLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQ  125 (169)
T ss_pred             cchhhh-hcCCEEEEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEccccccccc
Confidence            456788 9999999999999999999999999876432  4799999999999975553

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.47  E-value=2.4e-13  Score=80.24  Aligned_cols=57  Identities=19%  Similarity=0.354  Sum_probs=47.0

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++.|| +++|++++|||.+++.+|+++..|+.++.... .+++|++|||||+|+.+...
T Consensus        70 ~~~~~-~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~  127 (168)
T cd04149          70 WRHYY-TGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMK  127 (168)
T ss_pred             HHHHh-ccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCC
Confidence            46788 99999999999999999999988777665432 36789999999999975433

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.46  E-value=2.1e-13  Score=79.06  Aligned_cols=59  Identities=32%  Similarity=0.683  Sum_probs=50.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .+.++ ++++++++|||+++++||+.+..|+..+....+.+.|++++|||+|+.+.+.+.
T Consensus        66 ~~~~~-~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~  124 (161)
T cd01861          66 IPSYI-RDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVS  124 (161)
T ss_pred             HHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccC
Confidence            45678 999999999999999999999999999876654579999999999996555444

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.46  E-value=1.9e-13  Score=80.24  Aligned_cols=60  Identities=23%  Similarity=0.427  Sum_probs=52.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.++ ++++++++|||++++++|+.+..|...+.+.. ..+.|++++|||.|+.+.+.++
T Consensus        65 ~~~~~~-~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~  125 (168)
T cd04177          65 MRELYI-KSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVS  125 (168)
T ss_pred             hhHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccC
Confidence            467788 99999999999999999999999999987644 3679999999999997766554

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.45  E-value=2.9e-13  Score=80.97  Aligned_cols=54  Identities=37%  Similarity=0.714  Sum_probs=47.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|| +++|++++|||+++++||+++..|++.++... ++.|+++||||+|+.+
T Consensus        66 ~~~~~~-~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~  119 (193)
T cd04118          66 MSRIYY-RGAKAAIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIE  119 (193)
T ss_pred             hhHhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccc
Confidence            345678 99999999999999999999999999987764 5799999999999853

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.45  E-value=2.9e-13  Score=79.11  Aligned_cols=61  Identities=28%  Similarity=0.613  Sum_probs=52.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +..|+ +++|++++|||+++++||+.+..|+.++......++|++++|||+|+.+.+++...
T Consensus        73 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~  133 (169)
T cd04114          73 TQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQ  133 (169)
T ss_pred             HHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHH
Confidence            35678 99999999999999999999999999887766567999999999999876666543

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.44  E-value=3.9e-13  Score=78.58  Aligned_cols=54  Identities=33%  Similarity=0.713  Sum_probs=48.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||++++.+|+.+..|+..+++.. ++.|+++||||+|+.+
T Consensus        65 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~  118 (161)
T cd04124          65 MHASYY-HKAHACILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDP  118 (161)
T ss_pred             hhHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCch
Confidence            456789 99999999999999999999999999997764 6799999999999853

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.44  E-value=5.3e-13  Score=78.61  Aligned_cols=59  Identities=15%  Similarity=0.206  Sum_probs=49.0

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||.+++++|+++..|+..+.+.. ..+.|+++||||+|+.+.....
T Consensus        60 ~~~~~-~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~  119 (169)
T cd04158          60 WKHYY-LNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVE  119 (169)
T ss_pred             HHHHh-ccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCCCHH
Confidence            45788 99999999999999999999999998886543 2568999999999997543333

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.44  E-value=6.1e-13  Score=79.52  Aligned_cols=67  Identities=18%  Similarity=0.321  Sum_probs=50.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      +++.|| +++|++|+|||++++++|+.+..|+..+... ...+.|++|||||.|+.+.....+.....+
T Consensus        77 ~~~~~~-~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~  144 (182)
T PTZ00133         77 LWRHYY-QNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLG  144 (182)
T ss_pred             HHHHHh-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhC
Confidence            356789 9999999999999999999997777666332 225689999999999976544444444443

>PLN03118 Rab family protein; Provisional

Probab=99.44  E-value=3.1e-13  Score=82.25  Aligned_cols=60  Identities=40%  Similarity=0.664  Sum_probs=49.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHH-HHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSR-WLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||+++++||+++.. |...+.... ..+.|+++||||+|+...+.++
T Consensus        78 ~~~~~~-~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~  139 (211)
T PLN03118         78 LTSSYY-RNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVS  139 (211)
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccC
Confidence            356788 99999999999999999999965 777665543 2568999999999998766665

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.41  E-value=7.2e-13  Score=76.94  Aligned_cols=59  Identities=41%  Similarity=0.776  Sum_probs=51.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++.++ +++|++++|||.+++++|+.+..|+..+.....+++|+++++||+|+.+.+.+.
T Consensus        67 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~  125 (163)
T cd01860          67 APMYY-RGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVS  125 (163)
T ss_pred             HHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCC
Confidence            45678 999999999999999999999999999987766789999999999997555433

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.38  E-value=2e-12  Score=75.06  Aligned_cols=54  Identities=48%  Similarity=0.916  Sum_probs=48.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~   56 (78)
                      +++.++ +++|++++|||.++++||+.+..|+..+.+.. ..+.|++++|||+|+.
T Consensus        65 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~  119 (161)
T cd01863          65 LTSSYY-RGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE  119 (161)
T ss_pred             hhHHHh-CCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc
Confidence            345678 99999999999999999999999999998775 3679999999999997

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.38  E-value=1.2e-12  Score=78.32  Aligned_cols=52  Identities=25%  Similarity=0.548  Sum_probs=45.8

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.++ +++++++++||+++++||+.+. .|...++... +++|+++||||+|+.+
T Consensus        67 ~~~~-~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~  119 (187)
T cd04129          67 PLSY-SKAHVILIGFAVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQ  119 (187)
T ss_pred             hhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhh
Confidence            4567 8999999999999999999995 6999998765 5799999999999954

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).

>cd04135 Tc10 TC10 subfamily

Probab=99.37  E-value=3.5e-12  Score=74.90  Aligned_cols=55  Identities=22%  Similarity=0.491  Sum_probs=47.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.++ ++++++++|||+++++||+.+ ..|...+... .++.|++++|||+|+.+.
T Consensus        64 ~~~~~~-~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~  119 (174)
T cd04135          64 LRPLSY-PMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDD  119 (174)
T ss_pred             cccccC-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcC
Confidence            456788 999999999999999999999 5798888766 478999999999998643

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.37  E-value=2.9e-12  Score=74.21  Aligned_cols=58  Identities=26%  Similarity=0.369  Sum_probs=48.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++..|+ ++++++++|+|.+++.+|..+..|+..+.+..   ..+.|+++||||+|+.+...
T Consensus        61 ~~~~~~-~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~  121 (162)
T cd04157          61 LWEHYY-KNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALT  121 (162)
T ss_pred             HHHHHH-ccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCC
Confidence            356788 99999999999999999999999988875532   25799999999999976543

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.37  E-value=3.2e-12  Score=74.97  Aligned_cols=55  Identities=31%  Similarity=0.537  Sum_probs=47.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..++ +++|++++|||+++++||+.+ ..|.+.+++.. ++.|+++||||+|+.+.+.
T Consensus        65 ~~~~-~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~  120 (166)
T cd01893          65 AAEI-RKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSS  120 (166)
T ss_pred             hhhc-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccc
Confidence            4567 899999999999999999998 57988887765 5899999999999977654

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.34  E-value=4.2e-12  Score=74.86  Aligned_cols=60  Identities=18%  Similarity=0.278  Sum_probs=49.0

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||.+++++|+++..|+..+... ...+.|+++||||+|+.+.....+
T Consensus        75 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~  135 (173)
T cd04154          75 WRNYF-ESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEE  135 (173)
T ss_pred             HHHHh-CCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHH
Confidence            45688 9999999999999999999998888877543 236799999999999976554333

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.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.34  E-value=4e-12  Score=74.85  Aligned_cols=66  Identities=21%  Similarity=0.324  Sum_probs=53.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      |.+.|+ .-+||+++||+..|++||+.+.-..+++.++.. ..+||++.|||.|+.+.+++....++.
T Consensus        77 Lprhy~-q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~  143 (198)
T KOG3883|consen   77 LPRHYF-QFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQI  143 (198)
T ss_pred             hhHhHh-ccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHH
Confidence            346788 999999999999999999998766666666553 679999999999998888877544443

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.33  E-value=3.9e-12  Score=79.53  Aligned_cols=58  Identities=16%  Similarity=0.136  Sum_probs=49.3

Q ss_pred             CccccchhcCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            1 VINSAYYNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +|.+.|+ +++|++++|||+++++ ||+.+..|+..+..   .++|+++|+||+||.+.+.+.
T Consensus        28 ~L~r~~~-~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~   86 (245)
T TIGR00157        28 ELTRPIV-ANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDME   86 (245)
T ss_pred             eEECccc-ccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHH
Confidence            3667899 9999999999999988 89999999987653   568999999999997655554

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.33  E-value=1e-11  Score=72.98  Aligned_cols=53  Identities=23%  Similarity=0.571  Sum_probs=46.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++.++ +++|++++|||+++++||+++ ..|...++... ++.|+++||||+|+.+
T Consensus        66 ~~~~~-~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~  119 (175)
T cd01870          66 RPLSY-PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRN  119 (175)
T ss_pred             ccccc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhccc
Confidence            45678 999999999999999999999 56988887654 6799999999999864

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.33  E-value=9.7e-12  Score=72.06  Aligned_cols=62  Identities=19%  Similarity=0.279  Sum_probs=49.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +..|+ ++++++++|+|.+++.++..+..|+.++.+.. ..+.|+++|+||+|+.+.....+..
T Consensus        61 ~~~~~-~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~  123 (160)
T cd04156          61 WKCYL-ENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEIT  123 (160)
T ss_pred             HHHHh-ccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHH
Confidence            45678 99999999999999999999988888875443 2579999999999997544333333

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.32  E-value=4.3e-12  Score=73.45  Aligned_cols=58  Identities=26%  Similarity=0.488  Sum_probs=49.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCc
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +..++ +++++++++||+++++||+++..|...+.+.. ..+.|+++|+||+|+.+.+..
T Consensus        65 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~  123 (164)
T cd04139          65 RDNYH-RSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQV  123 (164)
T ss_pred             HHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccccccc
Confidence            45678 99999999999999999999999999887764 357999999999999764433

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.31  E-value=1.3e-11  Score=74.42  Aligned_cols=60  Identities=22%  Similarity=0.304  Sum_probs=50.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCC-CCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKH-LPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~-~~~v~   62 (78)
                      +++.|+ +++|++++|||++++++|+.+..|+..+.+... .+.|+++||||.|+.. .+.+.
T Consensus        63 ~~~~~~-~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~  124 (198)
T cd04147          63 MRKLSI-QNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVP  124 (198)
T ss_pred             HHHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccccccccc
Confidence            345788 999999999999999999999999988877653 5799999999999965 35444

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.

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

Probab=99.31  E-value=9.5e-12  Score=74.38  Aligned_cols=67  Identities=18%  Similarity=0.270  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      ++..|| ++++++++|+|.+++++++....|+.++.+.. ..+.|+++|+||+|+.+.....+....++
T Consensus        77 ~~~~~~-~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~  144 (184)
T smart00178       77 LWKDYF-PEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALG  144 (184)
T ss_pred             HHHHHh-CCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcC
Confidence            346788 99999999999999999999988887775432 25789999999999976555555555554

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.31  E-value=1.3e-11  Score=73.04  Aligned_cols=65  Identities=28%  Similarity=0.324  Sum_probs=49.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ++.|| +++|++++|+|.+++++|..++.|+..+.+.. ..+.|+++++||+|+.+.....+....+
T Consensus        76 ~~~~~-~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l  141 (174)
T cd04153          76 WNTYY-TNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESL  141 (174)
T ss_pred             HHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHh
Confidence            45678 99999999999999999999987777765433 2579999999999997643333333333

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.30  E-value=1.6e-11  Score=71.73  Aligned_cols=58  Identities=36%  Similarity=0.651  Sum_probs=48.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++..|+ +++++++++||++++++|+++..|...+.....    .++|+++||||+|+...+.
T Consensus        65 ~~~~~~-~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  126 (172)
T cd01862          65 LGVAFY-RGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQ  126 (172)
T ss_pred             HHHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccc
Confidence            346788 999999999999999999999999888755442    3799999999999974433

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-

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.30  E-value=8.8e-12  Score=69.34  Aligned_cols=47  Identities=36%  Similarity=0.767  Sum_probs=38.2

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHH---HHHHHhhhcCCCCeEEEEeeCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSR---WLKDLGDHADSNIVIMMIGNKTD   54 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~---~~~~~~~~~~~~~~~~lvgnK~D   54 (78)
                      .+ .++|++++|||+++++||+.+.+   |+..+.... +++|+++||||.|
T Consensus        70 ~~-~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   70 FL-KKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             HH-HHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             hh-hcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            46 88999999999999999999844   566665544 6699999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd00876 Ras Ras family

Probab=99.29  E-value=7.2e-12  Score=72.15  Aligned_cols=59  Identities=29%  Similarity=0.505  Sum_probs=50.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..++ ++++++++|||++++++++++..|...+.+... ...|++++|||+|+.+.+.++
T Consensus        64 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~  123 (160)
T cd00876          64 RDLYI-RQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVS  123 (160)
T ss_pred             HHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceec
Confidence            34567 899999999999999999999999988877654 589999999999998755544

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.28  E-value=2.1e-11  Score=72.74  Aligned_cols=60  Identities=18%  Similarity=0.315  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|+|.+++++++.+..|+.++.+.. ..+.|+++|+||+|+.+.....
T Consensus        68 ~~~~~~-~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~~  128 (183)
T cd04152          68 LWKSYT-RCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVS  128 (183)
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCHH
Confidence            346788 99999999999999999999999998886653 2578999999999997544333

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.

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

Probab=99.26  E-value=3.1e-11  Score=69.90  Aligned_cols=64  Identities=19%  Similarity=0.311  Sum_probs=51.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.++ +++|++++|||++++++|..+..|+..+.... ..+.|+++++||+|+.+.+...+....
T Consensus        60 ~~~~~-~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~  124 (158)
T cd00878          60 WKHYY-ENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEK  124 (158)
T ss_pred             HHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHh
Confidence            45678 99999999999999999999988888775543 367999999999999776544444333

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.26  E-value=3.4e-11  Score=73.37  Aligned_cols=54  Identities=35%  Similarity=0.699  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ ++++++++|||++++.||..+..|+..+.+.. +++|++++|||+|+.+
T Consensus        74 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~  127 (215)
T PTZ00132         74 LRDGYY-IKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD  127 (215)
T ss_pred             hhHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcc
Confidence            346688 99999999999999999999999999998765 6799999999999964

>cd04151 Arl1 Arl1 subfamily

Probab=99.25  E-value=4.7e-11  Score=69.34  Aligned_cols=63  Identities=17%  Similarity=0.258  Sum_probs=47.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL-GDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++.|+ ++++++++|+|.+++.++.....|+..+ ++....+.|+++++||+|+.+.....+...
T Consensus        60 ~~~~~-~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~  123 (158)
T cd04151          60 WRCYY-SNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISE  123 (158)
T ss_pred             HHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHH
Confidence            46788 9999999999999999998886665544 332235799999999999975543344333

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.

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

Probab=99.25  E-value=1.7e-11  Score=72.43  Aligned_cols=59  Identities=31%  Similarity=0.452  Sum_probs=49.0

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..++ +++++++++||+++.++|+.+..|+..+.+.. ..+.|+++|+||+|+...+.+.
T Consensus        66 ~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~  125 (180)
T cd04137          66 PQKYS-IGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVS  125 (180)
T ss_pred             HHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccC
Confidence            45677 89999999999999999999999888876644 3678999999999997655444

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

>cd00154 Rab Rab family

Probab=99.24  E-value=2.9e-11  Score=69.07  Aligned_cols=53  Identities=53%  Similarity=0.998  Sum_probs=47.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ...++ +++|++++|+|.+++++++.+..|+..+.....++.|+++++||+|+.
T Consensus        66 ~~~~~-~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  118 (159)
T cd00154          66 TPSYY-RGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE  118 (159)
T ss_pred             HHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc
Confidence            35677 999999999999999999999999999987765789999999999996

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.22  E-value=3.4e-11  Score=70.24  Aligned_cols=55  Identities=25%  Similarity=0.556  Sum_probs=47.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ++.++ +.+|++++|||+++++||... ..|...+.... ++.|+++||||+|+.+.+
T Consensus        65 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~  120 (171)
T cd00157          65 RPLSY-PNTDVFLICFSVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDE  120 (171)
T ss_pred             chhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhch
Confidence            45677 899999999999999999988 67888887665 589999999999997654

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.22  E-value=6.8e-11  Score=70.47  Aligned_cols=62  Identities=19%  Similarity=0.311  Sum_probs=49.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +..|+ ++++++++|+|.+++++|+....|+..+.+.. ..+.|++++|||+|+.+.....+..
T Consensus        80 ~~~~~-~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~~~~~~~  142 (190)
T cd00879          80 WKDYF-PEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGAVSEEELR  142 (190)
T ss_pred             HHHHh-ccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCCcCHHHHH
Confidence            45688 99999999999999999999988888876543 2569999999999997543333333

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.

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

Probab=99.21  E-value=4.8e-11  Score=72.42  Aligned_cols=58  Identities=38%  Similarity=0.683  Sum_probs=49.5

Q ss_pred             ccccchhcCCcEEEEEEECCCh-hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKS-TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++.|| +++++++++||.+++ .+++.+..|..++....+.+.|+++||||+||...+.
T Consensus        70 ~~~~y~-~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~  128 (219)
T COG1100          70 LRPEYY-RGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQS  128 (219)
T ss_pred             HHHHHh-cCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchh
Confidence            567899 999999999999995 4555569999999888766799999999999987653

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=1e-10  Score=70.10  Aligned_cols=67  Identities=19%  Similarity=0.333  Sum_probs=57.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      +++.|| ++.+++|+|.|.+|++.+...+.-+..+..+.. .++|+++.+||.|+++...+.+..+.++
T Consensus        77 lW~~Y~-~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~  144 (181)
T KOG0070|consen   77 LWKHYF-QNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLG  144 (181)
T ss_pred             chhhhc-cCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhh
Confidence            678999 999999999999999999999776666655543 6899999999999999988887777665

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.19  E-value=9.4e-11  Score=68.32  Aligned_cols=57  Identities=21%  Similarity=0.319  Sum_probs=47.6

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +..++ ++++++++|+|.+++++++....|+..+.+.. ..+.|+++++||+|+.+...
T Consensus        67 ~~~~~-~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~  124 (167)
T cd04160          67 WDKYY-AECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALS  124 (167)
T ss_pred             HHHHh-CCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCC
Confidence            45678 99999999999999999999988888876543 36799999999999976443

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.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.18  E-value=2.4e-10  Score=68.03  Aligned_cols=66  Identities=24%  Similarity=0.380  Sum_probs=53.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| ++++++|+|.|.++++.+...+..+.++.... -.++|+++++||+|+.+.....+....+
T Consensus        74 ~w~~y~-~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l  140 (175)
T PF00025_consen   74 LWKSYF-QNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYL  140 (175)
T ss_dssp             GGGGGH-TTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHT
T ss_pred             cceeec-cccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhh
Confidence            578999 99999999999999999999987777775433 3679999999999998766655554444

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 ....

>cd01898 Obg Obg subfamily

Probab=99.13  E-value=1.4e-10  Score=67.72  Aligned_cols=55  Identities=16%  Similarity=0.061  Sum_probs=45.8

Q ss_pred             cCCcEEEEEEECCCh-hhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCchH
Q 038356            9 RGALGALLVYDVTKS-TTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +.+|++++|+|.+++ ++++++..|.+++.+..+  .+.|+++|+||+|+.+...+.+
T Consensus        77 ~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~  134 (170)
T cd01898          77 ERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFE  134 (170)
T ss_pred             HhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHH
Confidence            359999999999999 899999999998877642  4689999999999976555543

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.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.13  E-value=5.8e-11  Score=71.82  Aligned_cols=54  Identities=39%  Similarity=0.690  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++.-|| -+++|.|++||++++-++.++..|.+++.+.+ .++||+++|||.|.+.
T Consensus        75 lrdgyy-I~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~  128 (216)
T KOG0096|consen   75 LRDGYY-IQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIKA  128 (216)
T ss_pred             cccccE-EecceeEEEeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceeccc
Confidence            456788 89999999999999999999999999999988 6699999999999865

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.12  E-value=4.5e-10  Score=64.20  Aligned_cols=61  Identities=26%  Similarity=0.356  Sum_probs=48.5

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +..|+ +++|++++|+|.++++++.....|+..+.... ..+.|+++|+||+|+.+.......
T Consensus        61 ~~~~~-~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~  122 (159)
T cd04159          61 WERYC-RGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDEL  122 (159)
T ss_pred             HHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHH
Confidence            45678 99999999999999999999887777765432 367899999999999766554433

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.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.04  E-value=9.7e-10  Score=64.07  Aligned_cols=66  Identities=23%  Similarity=0.404  Sum_probs=54.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| .++.|+|+|.|..+++..++.+.-+..+-.+.+ .++|+++.+||.|+++.+.+.+....+
T Consensus        77 lWrhYy-~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~l  143 (180)
T KOG0071|consen   77 LWRHYY-TGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKL  143 (180)
T ss_pred             HHHhhc-cCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHh
Confidence            578999 999999999999999999999766555544433 679999999999999988887766544

>cd04155 Arl3 Arl3 subfamily

Probab=98.98  E-value=3.9e-09  Score=61.84  Aligned_cols=65  Identities=18%  Similarity=0.296  Sum_probs=50.0

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      ..++ ++++++++|+|.++..++.....|...+.+.. ..++|+++++||+|+.+.....+.....+
T Consensus        76 ~~~~-~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~i~~~l~  141 (173)
T cd04155          76 RNYF-ENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALN  141 (173)
T ss_pred             HHHh-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHHHHHHcC
Confidence            4577 89999999999999999999877766664432 35799999999999976555555544443

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.97  E-value=1.1e-09  Score=71.35  Aligned_cols=54  Identities=15%  Similarity=0.107  Sum_probs=45.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCch
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ..++++++|+|+++.++++.+..|.+++....+  .+.|+++|+||+|+.+...+.
T Consensus       235 e~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~  290 (335)
T PRK12299        235 ERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEER  290 (335)
T ss_pred             hhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHH
Confidence            578999999999998899999999999987653  468999999999997655443

>cd01878 HflX HflX subfamily

Probab=98.93  E-value=4.4e-09  Score=63.45  Aligned_cols=54  Identities=22%  Similarity=0.126  Sum_probs=45.4

Q ss_pred             hhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            7 YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         7 ~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      + +++|++++|+|.+++.++..+..|.+.+......+.|+++|+||+|+.+....
T Consensus       118 ~-~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~  171 (204)
T cd01878         118 V-AEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL  171 (204)
T ss_pred             H-hcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH
Confidence            5 78999999999999999998888888777655467899999999999765443

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.

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=98.92  E-value=2.5e-09  Score=62.79  Aligned_cols=68  Identities=24%  Similarity=0.408  Sum_probs=54.1

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      +++..|+ |+.++++.|.|..+++.++..++-++.+....+ ..+|+++.|||.|+++.-.-.....+++
T Consensus        80 smWeryc-R~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmg  148 (186)
T KOG0075|consen   80 SMWERYC-RGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMG  148 (186)
T ss_pred             HHHHHHh-hcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhC
Confidence            4677889 999999999999999999988776666654433 6899999999999988766555555544

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.91  E-value=7.2e-09  Score=57.50  Aligned_cols=57  Identities=16%  Similarity=0.163  Sum_probs=47.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ...++ ++++++++||+.++++|++.+  |...+......++|.+++|||.|+.+++.+.
T Consensus        40 ~~~~~-~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~   96 (124)
T smart00010       40 DPTSY-ESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVA   96 (124)
T ss_pred             ccccc-CCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCC
Confidence            46788 999999999999999999877  8877765555679999999999996555444

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=98.88  E-value=9.1e-09  Score=61.14  Aligned_cols=61  Identities=16%  Similarity=0.248  Sum_probs=47.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL-GDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      .|+.|| ..+||.|+|+|.+|+..|+....-+.++ .+..-...|+++++||.|+.+.-+..+
T Consensus        76 ~W~nYf-estdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~  137 (185)
T KOG0073|consen   76 YWKNYF-ESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEE  137 (185)
T ss_pred             HHHHhh-hccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHH
Confidence            478999 9999999999999999999986655554 333225689999999999986544443

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=98.86  E-value=1.7e-09  Score=65.56  Aligned_cols=55  Identities=38%  Similarity=0.729  Sum_probs=48.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~   57 (78)
                      |+.-|| +.|++..+|||+++.-+|+.+..|..++....    +..+|+++.+||||+..
T Consensus        91 mtrVyy-kea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~  149 (229)
T KOG4423|consen   91 MTRVYY-KEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEK  149 (229)
T ss_pred             eEEEEe-cCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccCh
Confidence            678899 99999999999999999999999999986654    24688999999999864

>cd01890 LepA LepA subfamily

Probab=98.85  E-value=6.6e-09  Score=61.17  Aligned_cols=51  Identities=27%  Similarity=0.333  Sum_probs=40.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +..++ +++|++|+|+|.++..++.....|.....    .++|+++|+||+|+.+.
T Consensus        84 ~~~~~-~~ad~~i~v~D~~~~~~~~~~~~~~~~~~----~~~~iiiv~NK~Dl~~~  134 (179)
T cd01890          84 VSRSL-AACEGALLLVDATQGVEAQTLANFYLALE----NNLEIIPVINKIDLPSA  134 (179)
T ss_pred             HHHHH-HhcCeEEEEEECCCCccHhhHHHHHHHHH----cCCCEEEEEECCCCCcC
Confidence            34678 99999999999999888777777754322    45789999999999653

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=98.84  E-value=1e-08  Score=62.44  Aligned_cols=57  Identities=19%  Similarity=0.304  Sum_probs=44.5

Q ss_pred             ccchhcCC-cEEEEEEECCCh-hhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCc
Q 038356            4 SAYYNRGA-LGALLVYDVTKS-TTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         4 ~~y~~~~a-~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      ..|+ +++ +++|+|+|.++. +++..+..|+..+....   .+.+|+++++||+|+...+..
T Consensus        66 ~~~~-~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~~  127 (203)
T cd04105          66 LETL-KNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPA  127 (203)
T ss_pred             HHHH-hccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCCH
Confidence            4577 898 999999999998 78888877766553321   367999999999999765544

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.83  E-value=8.5e-09  Score=70.73  Aligned_cols=53  Identities=25%  Similarity=0.415  Sum_probs=46.6

Q ss_pred             cCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCc
Q 038356            9 RGALGALLVYDVTKSTTFENV-SRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      |.|+++.++|++++++|++.+ ..|+..+++..+  .++|++|||||+|+.....-
T Consensus        78 rkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   78 RKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             hhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            789999999999999999999 789999987763  57999999999999765443

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.81  E-value=4.8e-09  Score=59.84  Aligned_cols=44  Identities=16%  Similarity=0.004  Sum_probs=34.8

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ +++|++++|||++++.|+.. ..|....     . .|+++|+||+|+.+
T Consensus        59 ~~-~~ad~vilv~d~~~~~s~~~-~~~~~~~-----~-~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        59 TA-ADADVIALVQSATDPESRFP-PGFASIF-----V-KPVIGLVTKIDLAE  102 (142)
T ss_pred             Hh-hcCCEEEEEecCCCCCcCCC-hhHHHhc-----c-CCeEEEEEeeccCC
Confidence            47 89999999999999999865 3454321     1 39999999999965

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.

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

Probab=98.81  E-value=1.4e-08  Score=59.09  Aligned_cols=52  Identities=15%  Similarity=0.240  Sum_probs=41.4

Q ss_pred             CCcEEEEEEECCChhhH--HHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTKSTTF--ENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .+|++++|+|.+++.++  +....|+..+++.. ++.|+++|+||+|+.+.+.+.
T Consensus        79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~  132 (168)
T cd01897          79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLS  132 (168)
T ss_pred             ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHH
Confidence            36899999999998764  66677888887654 579999999999997665554

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.

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

Probab=98.81  E-value=1.5e-08  Score=59.18  Aligned_cols=57  Identities=19%  Similarity=0.111  Sum_probs=46.2

Q ss_pred             chhcCCcEEEEEEECCCh------hhHHHHHHHHHHHhhhcC-------CCCeEEEEeeCCCCCCCCCchH
Q 038356            6 YYNRGALGALLVYDVTKS------TTFENVSRWLKDLGDHAD-------SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~------~s~~~~~~~~~~~~~~~~-------~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++ ++++++++|+|.+++      ++++....|..++.....       .+.|+++|+||+|+...+....
T Consensus        71 ~~-~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~  140 (176)
T cd01881          71 HI-RRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEE  140 (176)
T ss_pred             HH-hccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHH
Confidence            46 789999999999998      688888888888865532       3689999999999976555544

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

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.78  E-value=1.5e-08  Score=60.06  Aligned_cols=50  Identities=20%  Similarity=0.539  Sum_probs=42.8

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      |.-. .++.+++++||++++++++++..|+.+.+.....-+| ++||+|.|+
T Consensus        87 Piac-~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~  136 (205)
T KOG1673|consen   87 PIAC-KDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDL  136 (205)
T ss_pred             ceee-cCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHh
Confidence            3345 7899999999999999999999999999877655566 689999996

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.76  E-value=2.6e-08  Score=65.24  Aligned_cols=55  Identities=25%  Similarity=0.184  Sum_probs=44.9

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      ++ ++||++++|+|.+++.+++.+..|...+.+....+.|+++|+||+|+.+...+
T Consensus       265 ~~-~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~v  319 (351)
T TIGR03156       265 EV-READLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPRI  319 (351)
T ss_pred             HH-HhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHhH
Confidence            46 89999999999999999988887777666654457899999999999754443

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).

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.71  E-value=6.3e-09  Score=62.35  Aligned_cols=65  Identities=20%  Similarity=0.287  Sum_probs=52.7

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhh-hcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ||+..|| ..+|++|.++|.++++.|+....-++.+.. ....++|+++.+||.|+.+..++.+...
T Consensus        84 Slw~~yY-~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~  149 (197)
T KOG0076|consen   84 SLWKKYY-WLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDG  149 (197)
T ss_pred             HHHHHHH-HHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHH
Confidence            5778899 999999999999999999998665555533 3347899999999999988766665443

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.70  E-value=2.9e-08  Score=64.57  Aligned_cols=53  Identities=15%  Similarity=0.085  Sum_probs=43.4

Q ss_pred             CCcEEEEEEECCCh---hhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTKS---TTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .++++++|+|+++.   ++++++..|.+++.....  .+.|+++|+||+|+.+.....
T Consensus       235 rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~  292 (329)
T TIGR02729       235 RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELA  292 (329)
T ss_pred             hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHH
Confidence            69999999999987   788888899888876542  468999999999997654433

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.66  E-value=2.2e-07  Score=51.86  Aligned_cols=56  Identities=48%  Similarity=0.765  Sum_probs=43.8

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHH-HHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLK-DLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~-~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .++ +.++++++|+|.++..+++....|.. ..........|+++++||+|+.+....
T Consensus        64 ~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~  120 (157)
T cd00882          64 LYY-RGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVV  120 (157)
T ss_pred             HHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccch
Confidence            466 89999999999999999999988732 223333478999999999999765443

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.64  E-value=8.7e-08  Score=64.48  Aligned_cols=49  Identities=24%  Similarity=0.232  Sum_probs=40.1

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..|+ +++|++++|+|.+++.+++..  |+..+..   .+.|+++|+||+|+.+.
T Consensus       277 ~~~~-~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~  325 (442)
T TIGR00450       277 FKAI-KQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN  325 (442)
T ss_pred             HHHH-hhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc
Confidence            3578 999999999999999988875  7666542   46799999999999643

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.

>PRK11058 GTPase HflX; Provisional

Probab=98.64  E-value=1.1e-07  Score=63.71  Aligned_cols=51  Identities=24%  Similarity=0.169  Sum_probs=41.7

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ ++||++++|+|.+++.+++.+..|...+......+.|+++|+||+|+.+
T Consensus       273 ~~-~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        273 ET-RQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLD  323 (426)
T ss_pred             Hh-hcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence            46 8999999999999999998886666555554445789999999999964

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=98.63  E-value=4.7e-08  Score=57.20  Aligned_cols=67  Identities=27%  Similarity=0.377  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL-GDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      .|..|| .+.|++|+|.|.+|+..|+++..-+.++ .+..-..+|+.+.+||.|+-....+++.+.+++
T Consensus        78 yWsNYy-envd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~kln  145 (185)
T KOG0074|consen   78 YWSNYY-ENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLN  145 (185)
T ss_pred             hhhhhh-hccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcc
Confidence            367899 9999999999999999999995544444 444446799999999999977666666665554

>PRK12289 GTPase RsgA; Reviewed

Probab=98.60  E-value=1.1e-07  Score=62.44  Aligned_cols=54  Identities=22%  Similarity=0.259  Sum_probs=41.7

Q ss_pred             ccccchhcCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      |.+..+ +++|.+++|+|+++++ +...+..|+..+..   .++|+++|+||+||....
T Consensus        82 L~R~~~-aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~  136 (352)
T PRK12289         82 LDRPPV-ANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPT  136 (352)
T ss_pred             eechhh-hcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChH
Confidence            345567 8999999999999876 55567778766532   568999999999996443

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

Probab=98.53  E-value=2.5e-07  Score=55.55  Aligned_cols=52  Identities=17%  Similarity=0.123  Sum_probs=37.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ...|+ +++|++++|+|.++. .+.....|+..+..   .++|+++|+||+|+.+.+
T Consensus        82 ~~~~~-~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~  133 (194)
T cd01891          82 VERVL-SMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPDAR  133 (194)
T ss_pred             HHHHH-HhcCEEEEEEECCCC-ccHHHHHHHHHHHH---cCCCEEEEEECCCCCCCC
Confidence            35678 999999999999874 23344444444432   468999999999996543

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

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.46  E-value=3.1e-07  Score=58.70  Aligned_cols=49  Identities=14%  Similarity=0.110  Sum_probs=41.6

Q ss_pred             chhcCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .+ .++|.+++|+|.+++. ++..+..|+..+..   .++|+++|.||+||.+.
T Consensus        75 i~-anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~  124 (287)
T cd01854          75 IA-ANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDD  124 (287)
T ss_pred             EE-EeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCCh
Confidence            36 7999999999999998 88988889887654   45899999999999654

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.44  E-value=6.4e-07  Score=50.59  Aligned_cols=55  Identities=33%  Similarity=0.567  Sum_probs=45.0

Q ss_pred             ccchhcCCcEEEEEEECCCh-hhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKS-TTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~-~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +.++ +.+++++.++|+... .+++... .|...+.+....+.|+++++||.|+...+
T Consensus        68 ~~~~-~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  124 (161)
T TIGR00231        68 RLYY-RAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK  124 (161)
T ss_pred             HHHH-hhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch
Confidence            4557 889999999999998 8888874 78887776664489999999999997644

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.43  E-value=5.5e-07  Score=52.89  Aligned_cols=66  Identities=15%  Similarity=0.209  Sum_probs=50.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      |+.|| .+.+++|.|.|.+|++..... ...+..+++..-.+..+++++||.|.......++....++
T Consensus        79 WRcYy-~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~  145 (182)
T KOG0072|consen   79 WRCYY-ADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLG  145 (182)
T ss_pred             HHHHh-cccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhC
Confidence            57899 999999999999999987776 4455555554436688999999999987666555544443

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.42  E-value=3.1e-07  Score=61.90  Aligned_cols=49  Identities=22%  Similarity=0.109  Sum_probs=39.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++ +++|++++|+|.+++.+++....|..      ..+.|+++|+||+|+.+...
T Consensus       290 ~~~-~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~  338 (449)
T PRK05291        290 EAI-EEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEID  338 (449)
T ss_pred             HHH-HhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccch
Confidence            467 89999999999999988887655543      25689999999999965433

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

Probab=98.40  E-value=9.6e-07  Score=50.68  Aligned_cols=52  Identities=12%  Similarity=-0.078  Sum_probs=37.2

Q ss_pred             ccchhc--CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            4 SAYYNR--GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         4 ~~y~~~--~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ..++ +  ++|++++|+|.+++++..   .|...+.+   .+.|+++|+||+|+.+...+.
T Consensus        67 ~~~~-~~~~~d~vi~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~  120 (158)
T cd01879          67 RDFL-LGEKPDLIVNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIK  120 (158)
T ss_pred             HHHh-cCCCCcEEEEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccch
Confidence            4455 5  999999999999876533   34444433   358999999999997654443

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.38  E-value=1.1e-06  Score=59.45  Aligned_cols=47  Identities=17%  Similarity=0.132  Sum_probs=38.1

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ ++||++++|+|.++..++..++ ++..+.+   .+.|+++|+||+||.+
T Consensus       290 ~i-~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~  336 (472)
T PRK03003        290 AI-EAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVD  336 (472)
T ss_pred             HH-hcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCC
Confidence            57 8999999999999998888764 4444432   5689999999999964

>cd04171 SelB SelB subfamily

Probab=98.37  E-value=1.6e-06  Score=49.99  Aligned_cols=47  Identities=23%  Similarity=0.048  Sum_probs=33.0

Q ss_pred             cchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +++|++++|+|.++   +++++.+..    ++..  ...|+++++||+|+.+.
T Consensus        70 ~~~-~~ad~ii~V~d~~~~~~~~~~~~~~~----~~~~--~~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          70 AGA-GGIDLVLLVVAADEGIMPQTREHLEI----LELL--GIKRGLVVLTKADLVDE  119 (164)
T ss_pred             hhh-hcCCEEEEEEECCCCccHhHHHHHHH----HHHh--CCCcEEEEEECccccCH
Confidence            457 89999999999987   455554331    2211  22489999999999754

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.37  E-value=9.5e-07  Score=59.34  Aligned_cols=49  Identities=20%  Similarity=0.179  Sum_probs=40.4

Q ss_pred             cCCcEEEEEEECCCh---hhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKS---TTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~   57 (78)
                      ..++++++|+|+++.   +++++...|.+++....+  .+.|.++|+||+||.+
T Consensus       235 er~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~  288 (424)
T PRK12297        235 ERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE  288 (424)
T ss_pred             hhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC
Confidence            358999999999865   788888888888877643  4689999999999854

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.37  E-value=1.1e-06  Score=59.41  Aligned_cols=49  Identities=24%  Similarity=0.222  Sum_probs=37.0

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..++ ++||++++|+|.++..++.. ..|...++.   .+.|+++|+||+|+..
T Consensus       112 ~~~~-~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~  160 (472)
T PRK03003        112 EVAM-RTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDER  160 (472)
T ss_pred             HHHH-HhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCc
Confidence            3467 89999999999999866543 344444442   4689999999999864

>cd01855 YqeH YqeH

Probab=98.31  E-value=8e-07  Score=53.33  Aligned_cols=49  Identities=20%  Similarity=0.153  Sum_probs=35.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ...|+ +++|++++|+|+++...     .|...+.... .+.|+++|+||+|+.+.
T Consensus        28 l~~~~-~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~~   76 (190)
T cd01855          28 LSSIS-PKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLPK   76 (190)
T ss_pred             HHhcc-cCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCCC
Confidence            45688 99999999999988642     2333332222 46799999999998643

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.29  E-value=3.1e-06  Score=51.11  Aligned_cols=63  Identities=25%  Similarity=0.345  Sum_probs=47.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ++..+. +|+.+.|++.|.++...+ .....++.+...  ..+|+++..||.||.+.+..+...+-+
T Consensus        84 m~~~l~-~ga~gaivlVDss~~~~~-~a~~ii~f~~~~--~~ip~vVa~NK~DL~~a~ppe~i~e~l  146 (187)
T COG2229          84 MWEILS-RGAVGAIVLVDSSRPITF-HAEEIIDFLTSR--NPIPVVVAINKQDLFDALPPEKIREAL  146 (187)
T ss_pred             HHHHHh-CCcceEEEEEecCCCcch-HHHHHHHHHhhc--cCCCEEEEeeccccCCCCCHHHHHHHH
Confidence            345677 999999999999999999 444444444433  229999999999999887776555444

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.29  E-value=1e-06  Score=50.68  Aligned_cols=50  Identities=16%  Similarity=0.228  Sum_probs=36.0

Q ss_pred             cCCcEEEEEEECCChhhHH--HHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            9 RGALGALLVYDVTKSTTFE--NVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ..+|++++|+|..++.+..  .+..|+...   . ++.|+++|.||+|+.++..+.
T Consensus        10 ~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~~~~   61 (141)
T cd01857          10 ERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEEQRK   61 (141)
T ss_pred             hhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHHHHH
Confidence            6899999999998876644  445554432   2 467999999999996544433

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.26  E-value=1.6e-06  Score=50.83  Aligned_cols=44  Identities=14%  Similarity=0.094  Sum_probs=34.5

Q ss_pred             hhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            7 YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         7 ~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      + +++|++++|+|.++.+++  +..|...+    ..+.|+++++||+|+.+
T Consensus        62 ~-~~ad~il~v~d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~  105 (158)
T PRK15467         62 L-QDVDMLIYVHGANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPD  105 (158)
T ss_pred             H-hcCCEEEEEEeCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCc
Confidence            6 799999999999998876  33455443    14578999999999965

>PRK00098 GTPase RsgA; Reviewed

Probab=98.23  E-value=1.5e-06  Score=55.85  Aligned_cols=46  Identities=22%  Similarity=0.255  Sum_probs=37.8

Q ss_pred             cCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++|.+++|+|+++++++... ..|+..+..   .++|+++|+||+||.+
T Consensus        79 aniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~  125 (298)
T PRK00098         79 ANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLD  125 (298)
T ss_pred             ecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCC
Confidence            789999999999998776654 778776653   4689999999999963

>PRK12288 GTPase RsgA; Reviewed

Probab=98.23  E-value=4.9e-06  Score=54.65  Aligned_cols=46  Identities=20%  Similarity=0.182  Sum_probs=38.8

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++|.+++|++++...++..+..|+..+..   .++|.++|.||+||.+.
T Consensus       120 NvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~  165 (347)
T PRK12288        120 NIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDD  165 (347)
T ss_pred             EccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCc
Confidence            38999999999988999999999875542   45889999999999653

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

Probab=98.21  E-value=3.5e-06  Score=48.05  Aligned_cols=49  Identities=20%  Similarity=0.133  Sum_probs=38.6

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++ +++|++++|+|.+++.+....+.|..      ..+.|+++|+||+|+.+...
T Consensus        76 ~~~-~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~  124 (157)
T cd04164          76 EAI-EEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSE  124 (157)
T ss_pred             HHH-hhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCccc
Confidence            356 78999999999999888877655433      25689999999999875443

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.

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

Probab=98.21  E-value=4.4e-06  Score=48.40  Aligned_cols=47  Identities=19%  Similarity=0.099  Sum_probs=33.9

Q ss_pred             ccchhcCCcEEEEEEECCCh---hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKS---TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++.   ++++.+..    +..   .+.|+++|+||+|+.+.
T Consensus        68 ~~~~-~~~d~il~v~d~~~~~~~~~~~~~~~----~~~---~~~p~ivv~NK~Dl~~~  117 (168)
T cd01887          68 ARGA-SLTDIAILVVAADDGVMPQTIEAIKL----AKA---ANVPFIVALNKIDKPNA  117 (168)
T ss_pred             HHHH-hhcCEEEEEEECCCCccHHHHHHHHH----HHH---cCCCEEEEEEceecccc
Confidence            4567 899999999999984   44443322    222   45799999999999643

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=98.20  E-value=4.5e-06  Score=55.59  Aligned_cols=55  Identities=18%  Similarity=0.135  Sum_probs=43.6

Q ss_pred             hhcCCcEEEEEEECC---ChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCch
Q 038356            7 YNRGALGALLVYDVT---KSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         7 ~~~~a~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      + ..++++++|+|++   +.+.++....|.+++.....  .+.|+++|.||+|+.+...+.
T Consensus       235 i-~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~  294 (390)
T PRK12298        235 L-ERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAE  294 (390)
T ss_pred             H-HhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHH
Confidence            5 7889999999998   56788888889888876542  368999999999997554443

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.17  E-value=8.1e-06  Score=50.64  Aligned_cols=48  Identities=21%  Similarity=0.165  Sum_probs=34.5

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ..++ +.+|++++|+|.++..+......|. ...   ..++|+++++||+|+.
T Consensus        91 ~~~l-~~aD~~ilVvD~~~g~~~~t~~~l~-~~~---~~~~p~ilviNKiD~~  138 (222)
T cd01885          91 TAAL-RLCDGALVVVDAVEGVCVQTETVLR-QAL---KERVKPVLVINKIDRL  138 (222)
T ss_pred             HHHH-HhcCeeEEEEECCCCCCHHHHHHHH-HHH---HcCCCEEEEEECCCcc
Confidence            3567 8999999999999876554432222 222   2457999999999975

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.14  E-value=5e-06  Score=57.93  Aligned_cols=50  Identities=24%  Similarity=0.286  Sum_probs=39.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +++|++++|+|.++..+......|.....    .++|+++|+||+|+.+.
T Consensus        88 ~~~l-~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~  137 (595)
T TIGR01393        88 SRSL-AACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSA  137 (595)
T ss_pred             HHHH-HhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCcc
Confidence            4578 99999999999999777777766654432    45799999999999643

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.11  E-value=7.6e-06  Score=51.74  Aligned_cols=49  Identities=20%  Similarity=0.079  Sum_probs=37.0

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +++|++++|+|.++..+.+  ..+...++.   .+.|+++|+||+|+.+..
T Consensus        75 ~~l-~~aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~  123 (270)
T TIGR00436        75 SAI-GGVDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKD  123 (270)
T ss_pred             HHH-hhCCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHH
Confidence            456 8999999999999987775  344444443   458999999999996433

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

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.10  E-value=6.2e-06  Score=49.43  Aligned_cols=60  Identities=15%  Similarity=0.238  Sum_probs=47.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++.|| -.+++++..+|..+.+.|...+.-++.+.... -.++|+++.|||+|.+......+
T Consensus        81 wkdyf-~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se~~  141 (193)
T KOG0077|consen   81 WKDYF-PQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASEDE  141 (193)
T ss_pred             HHHHH-hhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccHHH
Confidence            46788 89999999999999999999876665553322 26899999999999987654443

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.10  E-value=4.1e-06  Score=55.16  Aligned_cols=48  Identities=17%  Similarity=0.205  Sum_probs=37.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .+.|+ ++++++++|+|+.+..     ..|.+++.+.. .+.|+++|+||+||.+
T Consensus        57 l~~~~-~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~  104 (360)
T TIGR03597        57 LNSLG-DSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLP  104 (360)
T ss_pred             Hhhcc-cCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCC
Confidence            45678 8999999999997765     34666776665 4679999999999964

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.

>PRK04213 GTP-binding protein; Provisional

Probab=98.09  E-value=4.5e-07  Score=54.50  Aligned_cols=18  Identities=22%  Similarity=0.030  Sum_probs=15.0

Q ss_pred             CCCeEEEEeeCCCCCCCC
Q 038356           42 SNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus        42 ~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++|+++|+||+|+.+.+
T Consensus       129 ~~~p~iiv~NK~Dl~~~~  146 (201)
T PRK04213        129 LGIPPIVAVNKMDKIKNR  146 (201)
T ss_pred             cCCCeEEEEECccccCcH
Confidence            568999999999996544

>cd01895 EngA2 EngA2 subfamily

Probab=98.09  E-value=1.4e-05  Score=46.14  Aligned_cols=48  Identities=23%  Similarity=0.154  Sum_probs=36.0

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ +++|++++|+|.+++.+..... +...+..   .+.|+++++||+|+.+.
T Consensus        81 ~~-~~~d~vi~v~d~~~~~~~~~~~-~~~~~~~---~~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          81 AI-ERADVVLLVIDATEGITEQDLR-IAGLILE---EGKALVIVVNKWDLVEK  128 (174)
T ss_pred             HH-hhcCeEEEEEeCCCCcchhHHH-HHHHHHh---cCCCEEEEEeccccCCc
Confidence            45 7999999999999988765542 3333332   35899999999999765

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.08  E-value=9.9e-06  Score=53.89  Aligned_cols=47  Identities=23%  Similarity=0.178  Sum_probs=36.1

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      .++ +.+|++++|+|.++..+....+ +...+.+   .+.|+++|+||+|+.
T Consensus       250 ~~~-~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~  296 (429)
T TIGR03594       250 KAI-ERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLV  296 (429)
T ss_pred             HHH-HhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccC
Confidence            367 8999999999999887766643 3333332   458999999999996

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.04  E-value=1e-05  Score=55.38  Aligned_cols=53  Identities=13%  Similarity=0.119  Sum_probs=38.7

Q ss_pred             cCCcEEEEEEECCC----hhhHHHHHHHHHHHhhhcC-----------CCCeEEEEeeCCCCCCCCCc
Q 038356            9 RGALGALLVYDVTK----STTFENVSRWLKDLGDHAD-----------SNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         9 ~~a~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~~-----------~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      ..++++++|+|+++    ++.++.+..|..++.....           .+.|+++|+||+|+.+.+..
T Consensus       235 eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el  302 (500)
T PRK12296        235 ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL  302 (500)
T ss_pred             HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH
Confidence            67899999999986    3456666666666654431           36899999999999765443

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.04  E-value=2.2e-05  Score=46.11  Aligned_cols=50  Identities=20%  Similarity=0.142  Sum_probs=36.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +++|++++|+|.++..+... ..++.....   .+.|+++++||+|+...
T Consensus        80 ~~~~-~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~  129 (189)
T cd00881          80 IRGL-SVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGE  129 (189)
T ss_pred             HHHH-HhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcch
Confidence            4567 89999999999988665433 334444332   56899999999999753

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=98.03  E-value=9.1e-06  Score=56.63  Aligned_cols=47  Identities=19%  Similarity=0.051  Sum_probs=36.6

Q ss_pred             cccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..++ +.+|++++|+|.++   +.+++.+..+    +.   .++|+++++||+|+.+
T Consensus        86 ~~~~~-~~aD~~IlVvD~~~g~~~qt~e~i~~l----~~---~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        86 RKRGG-ALADLAILIVDINEGFKPQTQEALNIL----RM---YKTPFVVAANKIDRIP  135 (590)
T ss_pred             HHHHH-hhCCEEEEEEECCcCCCHhHHHHHHHH----HH---cCCCEEEEEECCCccc
Confidence            45678 99999999999997   6777766433    11   3589999999999963

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.01  E-value=1.8e-05  Score=56.05  Aligned_cols=48  Identities=17%  Similarity=0.167  Sum_probs=37.8

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ +.+|++++|+|.++..++..++-| ..+.+   .+.|+++|+||+|+.+.
T Consensus       529 ~i-~~advvilViDat~~~s~~~~~i~-~~~~~---~~~piIiV~NK~DL~~~  576 (712)
T PRK09518        529 AI-ERSELALFLFDASQPISEQDLKVM-SMAVD---AGRALVLVFNKWDLMDE  576 (712)
T ss_pred             Hh-hcCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCEEEEEEchhcCCh
Confidence            46 899999999999999888876533 34432   45899999999999653

>cd01894 EngA1 EngA1 subfamily

Probab=97.97  E-value=2.7e-05  Score=44.39  Aligned_cols=52  Identities=21%  Similarity=0.075  Sum_probs=35.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .++ +++|++++|+|.++..+.... .....+++   .+.|+++|+||+|+.+....
T Consensus        72 ~~~-~~~d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~  123 (157)
T cd01894          72 LAI-EEADVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE  123 (157)
T ss_pred             HHH-HhCCEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH
Confidence            356 899999999999876554432 12222222   34899999999999765443

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.

>cd00066 G-alpha G protein alpha subunit

Probab=97.94  E-value=2e-05  Score=51.15  Aligned_cols=54  Identities=13%  Similarity=0.175  Sum_probs=40.5

Q ss_pred             ccccchhcCCcEEEEEEECCCh----------hhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKS----------TTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~   56 (78)
                      .|..|| .+++++++|.|+++.          ..+......++.+-.+. -.+.|++|++||.|+-
T Consensus       177 kW~~~f-~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f  241 (317)
T cd00066         177 KWIHCF-EDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLF  241 (317)
T ss_pred             hHHHHh-CCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHH
Confidence            356789 999999999999984          45666655555554332 2679999999999974

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>cd04169 RF3 RF3 subfamily

Probab=97.90  E-value=5.9e-05  Score=47.91  Aligned_cols=50  Identities=18%  Similarity=0.126  Sum_probs=34.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +.+|++++|+|.++.-. .....++.....   .++|+++++||+|+.+..
T Consensus        90 ~~l-~~aD~~IlVvda~~g~~-~~~~~i~~~~~~---~~~P~iivvNK~D~~~a~  139 (267)
T cd04169          90 RTL-TAVDSAVMVIDAAKGVE-PQTRKLFEVCRL---RGIPIITFINKLDREGRD  139 (267)
T ss_pred             HHH-HHCCEEEEEEECCCCcc-HHHHHHHHHHHh---cCCCEEEEEECCccCCCC
Confidence            456 89999999999987532 222334443332   468999999999986543

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>smart00275 G_alpha G protein alpha subunit

Probab=97.89  E-value=3.1e-05  Score=50.78  Aligned_cols=54  Identities=11%  Similarity=0.152  Sum_probs=40.8

Q ss_pred             ccccchhcCCcEEEEEEECCCh----------hhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKS----------TTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~   56 (78)
                      .|..|| .+++++|+|.|+++.          ..++.....++.+-.+. -.++|++|+.||.|+-
T Consensus       200 kW~~~f-~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~  264 (342)
T smart00275      200 KWIHCF-DNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLF  264 (342)
T ss_pred             hHHHHh-CCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhH
Confidence            456789 999999999999973          45666655555554332 2679999999999984

Subunit of G proteins that contains the guanine nucleotide binding site

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.89  E-value=7e-05  Score=50.05  Aligned_cols=46  Identities=24%  Similarity=0.200  Sum_probs=33.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHH--HHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFE--NVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ +++|++++|+|.++..+..  .+..|+..      .+.|+++|+||+|+.+
T Consensus        76 ~~~-~~ad~il~vvd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~~  123 (435)
T PRK00093         76 LAI-EEADVILFVVDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGPD  123 (435)
T ss_pred             HHH-HhCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCcc
Confidence            457 8999999999998854432  33445432      2589999999999754

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.88  E-value=4.4e-05  Score=46.18  Aligned_cols=56  Identities=23%  Similarity=0.361  Sum_probs=35.7

Q ss_pred             chhcCCcEEEEEEECCC-hhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCch
Q 038356            6 YYNRGALGALLVYDVTK-STTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~-~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      |. +++.|+|+|.|.+. +..+..+.+++-.+....   ...+|++|++||+|+...+...
T Consensus        72 ~~-~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~~~~  131 (181)
T PF09439_consen   72 YL-SNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAKPPK  131 (181)
T ss_dssp             HH-GGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT---HH
T ss_pred             ch-hhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccCCHH
Confidence            45 78999999999874 556777755544443222   3679999999999997655433

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>cd04167 Snu114p Snu114p subfamily

Probab=97.88  E-value=3.7e-05  Score=46.93  Aligned_cols=47  Identities=28%  Similarity=0.278  Sum_probs=35.0

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      .++ +.+|++++|+|.++..++.. ..|+.....   .+.|+++|+||+|+.
T Consensus        90 ~~~-~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          90 AAL-RLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             HHH-HhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            457 89999999999988776643 344444432   348999999999974

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.87  E-value=3.6e-05  Score=48.07  Aligned_cols=49  Identities=20%  Similarity=0.134  Sum_probs=36.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..++ +.+|++++|+|.++.-+. ....|+..+++   .+.|+++++||+|+.+
T Consensus        82 ~~~l-~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~~  130 (237)
T cd04168          82 ERSL-SVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHH-HHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECccccC
Confidence            3567 899999999999886543 34455555544   3589999999999875

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>cd00880 Era_like Era (E

Probab=97.86  E-value=3.4e-05  Score=43.42  Aligned_cols=54  Identities=20%  Similarity=0.113  Sum_probs=40.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      .++ +.+|++++|+|.++..+..... |.....   ..+.|+++|+||+|+........
T Consensus        71 ~~~-~~~d~il~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~  124 (163)
T cd00880          71 RVL-ERADLILFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEE  124 (163)
T ss_pred             HHH-HhCCEEEEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHH
Confidence            367 8999999999999988877655 333332   25789999999999976555443

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

>PRK15494 era GTPase Era; Provisional

Probab=97.86  E-value=2.9e-05  Score=50.79  Aligned_cols=47  Identities=30%  Similarity=0.388  Sum_probs=33.4

Q ss_pred             chhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ ++||++++|+|.++  +|+.. ..|+..++..   +.|.++|+||+|+.+.
T Consensus       128 ~l-~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~  175 (339)
T PRK15494        128 SL-HSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK  175 (339)
T ss_pred             Hh-hhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc
Confidence            46 79999999998544  66666 4455555432   3566789999999653

>PRK05433 GTP-binding protein LepA; Provisional

Probab=97.83  E-value=4.8e-05  Score=53.19  Aligned_cols=50  Identities=26%  Similarity=0.303  Sum_probs=37.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++.........|.....    .++|+++|+||+|+.+.
T Consensus        92 ~~sl-~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a  141 (600)
T PRK05433         92 SRSL-AACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAA  141 (600)
T ss_pred             HHHH-HHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCcc
Confidence            4567 99999999999998765555555643321    46789999999999653

>cd01859 MJ1464 MJ1464

Probab=97.75  E-value=2.2e-05  Score=45.66  Aligned_cols=49  Identities=14%  Similarity=0.106  Sum_probs=32.8

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.+. +++|.+++|+|.+++.+... ..+...+.   ..+.|+++|.||+|+.+
T Consensus         7 ~~i~-~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~   55 (156)
T cd01859           7 RRII-KESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVP   55 (156)
T ss_pred             HHHH-hhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCC
Confidence            4556 88999999999987643222 12222222   13579999999999854

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.72  E-value=8.6e-05  Score=49.62  Aligned_cols=48  Identities=23%  Similarity=0.126  Sum_probs=35.9

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ +.+|++++|+|.++..+....+ +...+.+   .+.|+++++||+|+.+.
T Consensus       252 ~~-~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~  299 (435)
T PRK00093        252 AI-ERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDE  299 (435)
T ss_pred             HH-HHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCH
Confidence            56 8999999999999887766543 3333332   35799999999999743

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.68  E-value=0.00036  Score=34.84  Aligned_cols=43  Identities=21%  Similarity=0.295  Sum_probs=27.5

Q ss_pred             CcEEEEEEECCChhhH--HHHHHHHHHHhhhcCCCCeEEEEeeCCC
Q 038356           11 ALGALLVYDVTKSTTF--ENVSRWLKDLGDHADSNIVIMMIGNKTD   54 (78)
Q Consensus        11 a~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~lvgnK~D   54 (78)
                      ++++++++|.+..-.+  +.=.+.+++++..- ++.|+++|.||+|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            4678899999987644  43345667776665 6899999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>PRK04004 translation initiation factor IF-2; Validated

Probab=97.68  E-value=9.2e-05  Score=51.67  Aligned_cols=45  Identities=22%  Similarity=0.128  Sum_probs=35.2

Q ss_pred             ccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ..++ +.+|++++|+|.++   +.+++.+..+    ..   .++|+++++||+|+.
T Consensus        89 ~~~~-~~aD~~IlVvDa~~g~~~qt~e~i~~~----~~---~~vpiIvviNK~D~~  136 (586)
T PRK04004         89 KRGG-ALADIAILVVDINEGFQPQTIEAINIL----KR---RKTPFVVAANKIDRI  136 (586)
T ss_pred             HHhH-hhCCEEEEEEECCCCCCHhHHHHHHHH----HH---cCCCEEEEEECcCCc
Confidence            3456 78999999999998   7788776433    21   468999999999985

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

Probab=97.68  E-value=6.1e-05  Score=50.46  Aligned_cols=50  Identities=18%  Similarity=-0.059  Sum_probs=32.6

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHH-HHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSR-WLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ +++|++++|+|.++.+++...+. +...+.+.. ...|+++++||+|+.+
T Consensus       105 ~~-~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~-~~~~iIVviNK~Dl~~  155 (426)
T TIGR00483       105 GA-SQADAAVLVVAVGDGEFEVQPQTREHAFLARTL-GINQLIVAINKMDSVN  155 (426)
T ss_pred             hh-hhCCEEEEEEECCCCCcccCCchHHHHHHHHHc-CCCeEEEEEEChhccC
Confidence            45 78999999999999865422211 111222222 3357999999999964

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.65  E-value=7.5e-05  Score=53.36  Aligned_cols=47  Identities=21%  Similarity=0.189  Sum_probs=35.1

Q ss_pred             cccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..++ +.+|++|+|+|.++   +.+++.+..    +.   ..++|+++++||+|+.+
T Consensus       312 r~rg~-~~aDiaILVVDA~dGv~~QT~E~I~~----~k---~~~iPiIVViNKiDl~~  361 (742)
T CHL00189        312 RSRGA-NVTDIAILIIAADDGVKPQTIEAINY----IQ---AANVPIIVAINKIDKAN  361 (742)
T ss_pred             HHHHH-HHCCEEEEEEECcCCCChhhHHHHHH----HH---hcCceEEEEEECCCccc
Confidence            44677 89999999999887   455554432    22   24689999999999965

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.64  E-value=0.00013  Score=51.83  Aligned_cols=47  Identities=17%  Similarity=0.111  Sum_probs=34.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ +++|++++|+|.++.  +... ..|...++.   .+.|+++|+||+|+..
T Consensus       350 ~~~-~~aD~iL~VvDa~~~--~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~  397 (712)
T PRK09518        350 IAV-SLADAVVFVVDGQVG--LTSTDERIVRMLRR---AGKPVVLAVNKIDDQA  397 (712)
T ss_pred             HHH-HhCCEEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEECccccc
Confidence            467 899999999999763  2223 345555543   5689999999999864

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.63  E-value=0.00027  Score=47.08  Aligned_cols=49  Identities=27%  Similarity=0.324  Sum_probs=34.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++ +++|++++|+|.++.-+...  +..|+   ++   .+.|+++|+||+|+.+...
T Consensus        74 ~~~-~~ad~vl~vvD~~~~~~~~d~~i~~~l---~~---~~~piilVvNK~D~~~~~~  124 (429)
T TIGR03594        74 IAI-EEADVILFVVDGREGLTPEDEEIAKWL---RK---SGKPVILVANKIDGKKEDA  124 (429)
T ss_pred             HHH-hhCCEEEEEEeCCCCCCHHHHHHHHHH---HH---hCCCEEEEEECccCCcccc
Confidence            467 89999999999987544332  33343   32   3579999999999875443

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.62  E-value=7.3e-05  Score=52.18  Aligned_cols=47  Identities=13%  Similarity=-0.074  Sum_probs=32.7

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++|+++.|+|.++.+.   ...+..++.   +.+.|+++|+||+|+.+.+.+.
T Consensus        72 ~aDvvI~VvDat~ler---~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~  118 (591)
T TIGR00437        72 KPDLVVNVVDASNLER---NLYLTLQLL---ELGIPMILALNLVDEAEKKGIR  118 (591)
T ss_pred             CCCEEEEEecCCcchh---hHHHHHHHH---hcCCCEEEEEehhHHHHhCCCh
Confidence            7899999999987432   223333333   2468999999999996555443

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.

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

Probab=97.61  E-value=0.0002  Score=43.52  Aligned_cols=44  Identities=25%  Similarity=0.208  Sum_probs=30.1

Q ss_pred             cCCcEEEEEEECCCh----hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKS----TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++|++++|+|.++.    .+++.+..|    ...  ...|+++|+||+|+.+.
T Consensus       105 ~~~D~~llVvd~~~~~~~~~t~~~l~~~----~~~--~~~~iiivvNK~Dl~~~  152 (203)
T cd01888         105 AVMDGALLLIAANEPCPQPQTSEHLAAL----EIM--GLKHIIIVQNKIDLVKE  152 (203)
T ss_pred             hcCCEEEEEEECCCCCCCcchHHHHHHH----HHc--CCCcEEEEEEchhccCH
Confidence            567999999999873    445544433    111  22478999999999653

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=97.58  E-value=0.0002  Score=50.14  Aligned_cols=50  Identities=18%  Similarity=0.131  Sum_probs=37.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +.+|++++|+|.++. .....+.|+..+..   .++|.+++.||+|+.+.+
T Consensus        83 ~~l-~~aD~alLVVDa~~G-~~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~  132 (594)
T TIGR01394        83 RVL-GMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPSAR  132 (594)
T ss_pred             HHH-HhCCEEEEEEeCCCC-CcHHHHHHHHHHHH---CCCCEEEEEECCCCCCcC
Confidence            467 899999999999763 34555667666654   357899999999996544

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.

>cd04163 Era Era subfamily

Probab=97.57  E-value=0.00016  Score=41.22  Aligned_cols=46  Identities=22%  Similarity=0.192  Sum_probs=32.4

Q ss_pred             chhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ +++|++++|+|.++..  ... ..+...+..   .+.|+++|+||+|+..
T Consensus        79 ~~-~~~d~i~~v~d~~~~~--~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~~  125 (168)
T cd04163          79 AL-KDVDLVLFVVDASEPI--GEGDEFILELLKK---SKTPVILVLNKIDLVK  125 (168)
T ss_pred             HH-HhCCEEEEEEECCCcc--CchHHHHHHHHHH---hCCCEEEEEEchhccc
Confidence            46 8999999999999872  222 223333332   2579999999999973

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.

>cd01858 NGP_1 NGP-1

Probab=97.55  E-value=0.00018  Score=41.94  Aligned_cols=48  Identities=17%  Similarity=0.180  Sum_probs=32.9

Q ss_pred             cCCcEEEEEEECCChhh--HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTT--FENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++|.+++|.|..++.+  -..+..+   +... ..+.|+++|.||+|+.+...
T Consensus         7 ~~aD~il~VvD~~~p~~~~~~~i~~~---l~~~-~~~~p~ilVlNKiDl~~~~~   56 (157)
T cd01858           7 DSSDVVIQVLDARDPMGTRCKHVEEY---LKKE-KPHKHLIFVLNKCDLVPTWV   56 (157)
T ss_pred             hhCCEEEEEEECCCCccccCHHHHHH---HHhc-cCCCCEEEEEEchhcCCHHH
Confidence            78999999999988632  2223333   2222 24589999999999965443

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.52  E-value=0.00029  Score=49.17  Aligned_cols=47  Identities=28%  Similarity=0.172  Sum_probs=34.2

Q ss_pred             cchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~~~   59 (78)
                      .++ .++|++++|+|.++   +.+++.+. +   +..   .++| +++|+||+|+.+..
T Consensus        69 ~g~-~~aD~aILVVDa~~G~~~qT~ehl~-i---l~~---lgi~~iIVVlNK~Dlv~~~  119 (581)
T TIGR00475        69 AGG-GGIDAALLVVDADEGVMTQTGEHLA-V---LDL---LGIPHTIVVITKADRVNEE  119 (581)
T ss_pred             hhh-ccCCEEEEEEECCCCCcHHHHHHHH-H---HHH---cCCCeEEEEEECCCCCCHH
Confidence            356 79999999999998   56666553 1   222   2466 99999999997644

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=97.51  E-value=0.00012  Score=50.96  Aligned_cols=49  Identities=29%  Similarity=0.411  Sum_probs=38.7

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .+|.+.++||.+++.||+.+..-++.....  ...|+++|+.|+||.+..+
T Consensus       495 ~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q  543 (625)
T KOG1707|consen  495 ACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQ  543 (625)
T ss_pred             eeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhh
Confidence            468899999999999999886654443322  6799999999999976553

>PRK13351 elongation factor G; Reviewed

Probab=97.51  E-value=0.00028  Score=49.94  Aligned_cols=50  Identities=20%  Similarity=0.218  Sum_probs=38.5

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++..+......|. .+..   .++|+++++||+|+.+.
T Consensus        91 ~~~l-~~aD~~ilVvd~~~~~~~~~~~~~~-~~~~---~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         91 ERSL-RVLDGAVVVFDAVTGVQPQTETVWR-QADR---YGIPRLIFINKMDRVGA  140 (687)
T ss_pred             HHHH-HhCCEEEEEEeCCCCCCHHHHHHHH-HHHh---cCCCEEEEEECCCCCCC
Confidence            4567 8999999999999887776655553 3332   35899999999998764

>cd01889 SelB_euk SelB subfamily

Probab=97.50  E-value=0.00047  Score=41.25  Aligned_cols=45  Identities=24%  Similarity=0.199  Sum_probs=30.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.+|++++|+|.++..+......|.  +...  .+.|+++++||+|+..
T Consensus        90 ~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~  134 (192)
T cd01889          90 QIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIP  134 (192)
T ss_pred             hhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCC
Confidence            3568999999998854443333332  1122  2469999999999864

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

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

Probab=97.48  E-value=0.00034  Score=41.45  Aligned_cols=49  Identities=18%  Similarity=0.276  Sum_probs=33.2

Q ss_pred             cchhcC---CcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRG---ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~---a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .|+ +.   ++++++|+|.+++-+..... +...+..   .+.|+++++||+|+.+.
T Consensus        93 ~~l-~~~~~~~~ii~vvd~~~~~~~~~~~-~~~~~~~---~~~pviiv~nK~D~~~~  144 (179)
T TIGR03598        93 EYL-EKRENLKGVVLLMDIRHPLKELDLE-MLEWLRE---RGIPVLIVLTKADKLKK  144 (179)
T ss_pred             HHH-HhChhhcEEEEEecCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCCH
Confidence            455 54   57999999998865555442 2233332   35899999999998643

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.

>PRK00089 era GTPase Era; Reviewed

Probab=97.47  E-value=0.00027  Score=45.02  Aligned_cols=46  Identities=20%  Similarity=0.257  Sum_probs=31.5

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHH-HHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRW-LKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~-~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .+ .++|++++|+|.++.  +.....+ .+.+.   ..+.|+++|+||+|+..
T Consensus        81 ~~-~~~D~il~vvd~~~~--~~~~~~~i~~~l~---~~~~pvilVlNKiDl~~  127 (292)
T PRK00089         81 SL-KDVDLVLFVVDADEK--IGPGDEFILEKLK---KVKTPVILVLNKIDLVK  127 (292)
T ss_pred             HH-hcCCEEEEEEeCCCC--CChhHHHHHHHHh---hcCCCEEEEEECCcCCC
Confidence            45 789999999999882  2222222 22222   24689999999999973

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.46  E-value=0.00017  Score=41.97  Aligned_cols=45  Identities=16%  Similarity=0.028  Sum_probs=30.0

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356           12 LGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus        12 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      |.+++|.|..++.+...  .|+.. ......+.|+++|.||+|+.+..
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~   45 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKE   45 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHH
Confidence            57899999988765542  23331 11112568999999999996543

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=97.46  E-value=0.00022  Score=49.91  Aligned_cols=47  Identities=21%  Similarity=0.163  Sum_probs=33.7

Q ss_pred             cccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..++ +.+|++++|+|.++   +.+.+.+.    ...   ..++|+++++||+|+.+
T Consensus       152 r~rga-~~aDiaILVVda~dgv~~qT~e~i~----~~~---~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       152 RARGA-KVTDIVVLVVAADDGVMPQTIEAIS----HAK---AANVPIIVAINKIDKPE  201 (587)
T ss_pred             HHhhh-ccCCEEEEEEECCCCCCHhHHHHHH----HHH---HcCCCEEEEEECccccc
Confidence            34567 89999999999886   44544332    111   24689999999999964

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=97.46  E-value=0.00016  Score=51.98  Aligned_cols=47  Identities=17%  Similarity=0.110  Sum_probs=33.9

Q ss_pred             cccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..++ +.+|++|+|+|.++   +.+.+.+..    +.   ..++|+++++||+|+.+
T Consensus       354 ~~rga-~~aDiaILVVdAddGv~~qT~e~i~~----a~---~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        354 RARGA-QVTDIVVLVVAADDGVMPQTIEAINH----AK---AAGVPIIVAINKIDKPG  403 (787)
T ss_pred             HHhhh-hhCCEEEEEEECCCCCCHhHHHHHHH----HH---hcCCcEEEEEECccccc
Confidence            34566 78999999999987   455544321    11   25689999999999965

>PRK14845 translation initiation factor IF-2; Provisional

Probab=97.37  E-value=0.00041  Score=51.32  Aligned_cols=46  Identities=24%  Similarity=0.156  Sum_probs=34.9

Q ss_pred             ccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ...+ +.+|++++|+|.++   +.+++.+..+    +.   .++|+++++||+|+..
T Consensus       544 ~~g~-~~aDivlLVVDa~~Gi~~qT~e~I~~l----k~---~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        544 KRGG-SLADLAVLVVDINEGFKPQTIEAINIL----RQ---YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             Hhhc-ccCCEEEEEEECcccCCHhHHHHHHHH----HH---cCCCEEEEEECCCCcc
Confidence            3456 78999999999987   6777766432    22   3579999999999953

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.28  E-value=0.00048  Score=46.18  Aligned_cols=47  Identities=15%  Similarity=-0.012  Sum_probs=29.8

Q ss_pred             cCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++|++++|+|.+++.++... ..+...+.. . ...|+++++||+|+.+
T Consensus       106 ~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~-~-~~~~iivviNK~Dl~~  153 (425)
T PRK12317        106 SQADAAVLVVAADDAGGVMPQTREHVFLART-L-GINQLIVAINKMDAVN  153 (425)
T ss_pred             hcCCEEEEEEEcccCCCCCcchHHHHHHHHH-c-CCCeEEEEEEcccccc
Confidence            689999999999874222221 222222222 2 2347899999999964

>TIGR00503 prfC peptide chain release factor 3

Probab=97.27  E-value=0.00097  Score=46.18  Aligned_cols=48  Identities=17%  Similarity=0.105  Sum_probs=33.2

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ +.+|++++|+|.++. --...+.+++..+.   .++|+++++||+|+..
T Consensus        99 ~~l-~~aD~aIlVvDa~~g-v~~~t~~l~~~~~~---~~~PiivviNKiD~~~  146 (527)
T TIGR00503        99 RTL-TAVDNCLMVIDAAKG-VETRTRKLMEVTRL---RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             HHH-HhCCEEEEEEECCCC-CCHHHHHHHHHHHh---cCCCEEEEEECccccC
Confidence            356 889999999998863 11223444443332   4689999999999864

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.25  E-value=0.0011  Score=45.84  Aligned_cols=50  Identities=18%  Similarity=0.118  Sum_probs=34.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +.+|++++|+|.++.-. ...+.++.....   .++|+++++||+|+....
T Consensus        98 ~~l-~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741         98 RTL-TAVDSALMVIDAAKGVE-PQTRKLMEVCRL---RDTPIFTFINKLDRDGRE  147 (526)
T ss_pred             HHH-HHCCEEEEEEecCCCCC-HHHHHHHHHHHh---cCCCEEEEEECCcccccC
Confidence            457 89999999999987421 123344433332   468999999999986543

>PRK10218 GTP-binding protein; Provisional

Probab=97.17  E-value=0.0016  Score=45.90  Aligned_cols=51  Identities=16%  Similarity=-0.022  Sum_probs=35.1

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..++ +.+|++++|+|.++...- ..+.++..+..   .++|.+++.||+|+.+.+
T Consensus        86 ~~~l-~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~---~gip~IVviNKiD~~~a~  136 (607)
T PRK10218         86 ERVM-SMVDSVLLVVDAFDGPMP-QTRFVTKKAFA---YGLKPIVVINKVDRPGAR  136 (607)
T ss_pred             HHHH-HhCCEEEEEEecccCccH-HHHHHHHHHHH---cCCCEEEEEECcCCCCCc
Confidence            4577 999999999999874322 23333333332   457889999999987543

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=97.17  E-value=0.0015  Score=42.95  Aligned_cols=47  Identities=19%  Similarity=0.354  Sum_probs=38.2

Q ss_pred             CCcEEEEEEECCCh---hhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCC
Q 038356           10 GALGALLVYDVTKS---TTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLK   56 (78)
Q Consensus        10 ~a~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~   56 (78)
                      .+...++|.|++..   +-++.++....++..+..  .+-|.++|+||+|+.
T Consensus       274 R~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~  325 (366)
T KOG1489|consen  274 RCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP  325 (366)
T ss_pred             hhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch
Confidence            57889999999998   888888777777754432  678999999999995

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.13  E-value=0.0017  Score=46.17  Aligned_cols=49  Identities=18%  Similarity=0.191  Sum_probs=34.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +.+|++++|+|.++.........| ..++.   .++|+++++||+|+.+.
T Consensus        94 ~~l-~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        94 RSL-RVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             HHH-HHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCCCC
Confidence            456 899999999999875544433333 23332   35889999999999753

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>cd01856 YlqF YlqF

Probab=97.05  E-value=0.00051  Score=40.63  Aligned_cols=44  Identities=20%  Similarity=0.038  Sum_probs=29.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .+||.+++|+|.+++.+-.. ..+...    . .+.|.++|.||+|+.+.
T Consensus        18 ~~aD~il~v~D~~~~~~~~~-~~i~~~----~-~~k~~ilVlNK~Dl~~~   61 (171)
T cd01856          18 KLVDLVIEVRDARIPLSSRN-PLLEKI----L-GNKPRIIVLNKADLADP   61 (171)
T ss_pred             hhCCEEEEEeeccCccCcCC-hhhHhH----h-cCCCEEEEEehhhcCCh
Confidence            78999999999987643221 112111    1 34688999999999644

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.04  E-value=0.002  Score=46.52  Aligned_cols=47  Identities=15%  Similarity=-0.038  Sum_probs=34.8

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .+|+++.|.|.++.+.   ...|..++.+   .+.|++++.||+|+.+.+.+.
T Consensus        85 ~aD~vI~VvDat~ler---~l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i~  131 (772)
T PRK09554         85 DADLLINVVDASNLER---NLYLTLQLLE---LGIPCIVALNMLDIAEKQNIR  131 (772)
T ss_pred             CCCEEEEEecCCcchh---hHHHHHHHHH---cCCCEEEEEEchhhhhccCcH
Confidence            7899999999988654   2335555544   358999999999997655544

>COG2262 HflX GTPases [General function prediction only]

Probab=97.04  E-value=0.0034  Score=42.25  Aligned_cols=49  Identities=24%  Similarity=0.245  Sum_probs=39.2

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..||.++.|.|.+++...+.+..-.+-+.+..-.+.|+++|-||+|+-.
T Consensus       270 ~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~  318 (411)
T COG2262         270 KEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLE  318 (411)
T ss_pred             hcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccC
Confidence            4789999999999998777776665556555446699999999999653

>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=96.99  E-value=0.0024  Score=39.75  Aligned_cols=26  Identities=38%  Similarity=0.270  Sum_probs=19.3

Q ss_pred             cchhcCCcEEEEEEECCChh-hHHHHHH
Q 038356            5 AYYNRGALGALLVYDVTKST-TFENVSR   31 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~-s~~~~~~   31 (78)
                      .++ +++|++++|+|.++++ ..+.+.+
T Consensus        73 ~~~-~~ad~il~V~D~t~~~~~~~~~~~   99 (233)
T cd01896          73 AVA-RTADLILMVLDATKPEGHREILER   99 (233)
T ss_pred             Hhh-ccCCEEEEEecCCcchhHHHHHHH
Confidence            367 9999999999998876 3443333

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=96.99  E-value=0.002  Score=39.59  Aligned_cols=46  Identities=24%  Similarity=0.100  Sum_probs=29.3

Q ss_pred             cCCcEEEEEEECCChhh---H----HHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTT---F----ENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s---~----~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.+|++++|.|.++...   |    ...+.|. ... .. ...|++++.||+|+..
T Consensus        99 ~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~-~~~-~~-~~~~iiivvNK~Dl~~  151 (219)
T cd01883          99 SQADVAVLVVDARKGEFEAGFEKGGQTREHAL-LAR-TL-GVKQLIVAVNKMDDVT  151 (219)
T ss_pred             hhCCEEEEEEECCCCccccccccccchHHHHH-HHH-Hc-CCCeEEEEEEcccccc
Confidence            56999999999988421   1    1122232 222 21 3368999999999973

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

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

Probab=96.93  E-value=0.0038  Score=41.97  Aligned_cols=43  Identities=26%  Similarity=0.181  Sum_probs=28.5

Q ss_pred             CCcEEEEEEECCC----hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356           10 GALGALLVYDVTK----STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus        10 ~a~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++|++++|+|.++    ..+.+.+..+    ...  ...|+++|+||+|+.+.
T Consensus       108 ~~D~~llVVDa~~~~~~~~t~~~l~~l----~~~--~i~~iiVVlNK~Dl~~~  154 (411)
T PRK04000        108 LMDGAILVIAANEPCPQPQTKEHLMAL----DII--GIKNIVIVQNKIDLVSK  154 (411)
T ss_pred             hCCEEEEEEECCCCCCChhHHHHHHHH----HHc--CCCcEEEEEEeeccccc
Confidence            3599999999995    4445444322    211  22368999999999653

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=96.90  E-value=0.004  Score=37.91  Aligned_cols=48  Identities=25%  Similarity=0.079  Sum_probs=29.5

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .+ +.+|++++|+|.++... .........+...  ...++++|.||+|+.+
T Consensus        97 ~~-~~ad~~llVvD~~~~~~-~~~~~~~~~~~~~--~~~~iIvviNK~D~~~  144 (208)
T cd04166          97 GA-STADLAILLVDARKGVL-EQTRRHSYILSLL--GIRHVVVAVNKMDLVD  144 (208)
T ss_pred             hh-hhCCEEEEEEECCCCcc-HhHHHHHHHHHHc--CCCcEEEEEEchhccc
Confidence            45 78999999999987531 1122222222221  2245788999999864

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.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=96.90  E-value=0.0034  Score=39.62  Aligned_cols=49  Identities=22%  Similarity=0.222  Sum_probs=35.3

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +.+|++++|+|.++.........|. .+..   .+.|.+++.||+|+.+.
T Consensus        83 ~~l-~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvNK~D~~~~  131 (268)
T cd04170          83 AAL-RAADAALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFINKMDRERA  131 (268)
T ss_pred             HHH-HHCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCccCCC
Confidence            456 8899999999999876554334442 2322   45899999999998754

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

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

Probab=96.90  E-value=0.0053  Score=39.15  Aligned_cols=49  Identities=18%  Similarity=0.131  Sum_probs=32.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +.+|++++|.|.++.-.= .....+..+..   .+.|++++.||+|+.+.
T Consensus        83 ~~l-~~aD~ailVVDa~~g~~~-~t~~~~~~~~~---~~~p~ivviNK~D~~~a  131 (270)
T cd01886          83 RSL-RVLDGAVAVFDAVAGVEP-QTETVWRQADR---YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             HHH-HHcCEEEEEEECCCCCCH-HHHHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            456 899999999998764221 11223333332   45789999999998653

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>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=96.86  E-value=0.0069  Score=36.17  Aligned_cols=44  Identities=34%  Similarity=0.322  Sum_probs=29.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +.+|++|+|.|..+.-.-.. ...+..+..   .++|+++|.||+|+.
T Consensus        92 ~~~D~ailvVda~~g~~~~~-~~~l~~~~~---~~~p~ivvlNK~D~~  135 (188)
T PF00009_consen   92 RQADIAILVVDANDGIQPQT-EEHLKILRE---LGIPIIVVLNKMDLI  135 (188)
T ss_dssp             TTSSEEEEEEETTTBSTHHH-HHHHHHHHH---TT-SEEEEEETCTSS
T ss_pred             cccccceeeeeccccccccc-ccccccccc---cccceEEeeeeccch
Confidence            68999999999986533222 222233332   457899999999997

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 ....

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.84  E-value=0.0048  Score=35.13  Aligned_cols=41  Identities=20%  Similarity=0.320  Sum_probs=27.8

Q ss_pred             CcEEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356           11 ALGALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus        11 a~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .+++++++|.++..  ....+..|+..      .+.|+++++||+|+..
T Consensus        82 ~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~~  124 (170)
T cd01876          82 LKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKLK  124 (170)
T ss_pred             hhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcCC
Confidence            46788899887663  22334455443      2478999999999853

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=96.84  E-value=0.0017  Score=39.28  Aligned_cols=42  Identities=12%  Similarity=0.111  Sum_probs=29.5

Q ss_pred             hhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            7 YNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         7 ~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      + .++|.++++-+    ++|.+. ..|++.+++.   +.|+++|+||+|+.
T Consensus        78 ~-~~~d~~l~v~~----~~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~  120 (197)
T cd04104          78 F-SEYDFFIIISS----TRFSSNDVKLAKAIQCM---GKKFYFVRTKVDRD  120 (197)
T ss_pred             c-cCcCEEEEEeC----CCCCHHHHHHHHHHHHh---CCCEEEEEecccch
Confidence            5 67888888732    345555 4566666654   46889999999983

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

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=96.77  E-value=0.0013  Score=41.92  Aligned_cols=44  Identities=18%  Similarity=0.160  Sum_probs=30.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..||.+++|.|...+.+-++  .++.+..    .+.|+++|.||+|+.+.
T Consensus        20 ~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~   63 (276)
T TIGR03596        20 KLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADP   63 (276)
T ss_pred             hhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCH
Confidence            78999999999977644322  1111211    24689999999999643

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=96.73  E-value=0.0039  Score=41.75  Aligned_cols=44  Identities=30%  Similarity=0.212  Sum_probs=29.0

Q ss_pred             cCCcEEEEEEECCCh----hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKS----TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..+|++++|+|.++.    .+.+.+.    .+...  ...|++++.||+|+.+.
T Consensus       102 ~~aD~aIlVVDa~~g~~~~qt~e~l~----~l~~~--gi~~iIVvvNK~Dl~~~  149 (406)
T TIGR03680       102 ALMDGALLVIAANEPCPQPQTKEHLM----ALEII--GIKNIVIVQNKIDLVSK  149 (406)
T ss_pred             HHCCEEEEEEECCCCccccchHHHHH----HHHHc--CCCeEEEEEEccccCCH
Confidence            467999999999853    3444332    22222  22468999999999753

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

>PRK13796 GTPase YqeH; Provisional

Probab=96.71  E-value=0.0041  Score=41.21  Aligned_cols=42  Identities=24%  Similarity=0.381  Sum_probs=30.3

Q ss_pred             CCc-EEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356           10 GAL-GALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus        10 ~a~-~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ .+++|.|+.+..     ..|...+.+.. .+.|+++|+||+||.+
T Consensus        68 ~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~  110 (365)
T PRK13796         68 DSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLP  110 (365)
T ss_pred             ccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCC
Confidence            445 677899987754     33666666554 3678999999999964

>PRK12740 elongation factor G; Reviewed

Probab=96.65  E-value=0.0054  Score=43.40  Aligned_cols=49  Identities=16%  Similarity=0.123  Sum_probs=36.1

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +.+|++++|+|.++..+......|. .+..   .+.|++++.||+|+...
T Consensus        79 ~~l-~~aD~vllvvd~~~~~~~~~~~~~~-~~~~---~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         79 RAL-RVLDGAVVVVCAVGGVEPQTETVWR-QAEK---YGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHH-HHhCeEEEEEeCCCCcCHHHHHHHH-HHHH---cCCCEEEEEECCCCCCC
Confidence            456 8999999999998876665544443 3332   45899999999998753

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=96.65  E-value=0.0053  Score=36.43  Aligned_cols=47  Identities=21%  Similarity=0.371  Sum_probs=30.0

Q ss_pred             cchhcCC---cEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGA---LGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a---~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .|+ +.+   +++++++|.+++.+...  +..|+   ..   .+.|+++++||+|+...
T Consensus        99 ~~~-~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l---~~---~~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454         99 EYL-RTRENLKGVVLLIDSRHPLKELDLQMIEWL---KE---YGIPVLIVLTKADKLKK  150 (196)
T ss_pred             HHH-HhCccceEEEEEEecCCCCCHHHHHHHHHH---HH---cCCcEEEEEECcccCCH
Confidence            455 554   57788888877654432  22232   21   45889999999998654

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.59  E-value=0.003  Score=37.75  Aligned_cols=53  Identities=17%  Similarity=0.073  Sum_probs=31.2

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356           12 LGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus        12 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      |++++|.|..++.+-.+ ..+.+.+. ....+.|+++|.||+||.+...+..+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~~~~l~~~~~   53 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVPKENVEKWLK   53 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCCHHHHHHHHH
Confidence            67899999877533211 12222221 1124579999999999965444443333

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PLN00043 elongation factor 1-alpha; Provisional

Probab=96.43  E-value=0.0015  Score=44.35  Aligned_cols=49  Identities=24%  Similarity=0.145  Sum_probs=30.2

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCC-eEEEEeeCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNI-VIMMIGNKTDLK   56 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~-~~~lvgnK~Dl~   56 (78)
                      .. +.+|++|+|+|.++ .+|+....|..+.+++.    ..++ +++++.||+|+.
T Consensus       105 g~-~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~  158 (447)
T PLN00043        105 GT-SQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDAT  158 (447)
T ss_pred             hh-hhccEEEEEEEccc-CceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence            45 79999999999986 44542211211111111    1345 578899999985

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=96.43  E-value=0.003  Score=40.48  Aligned_cols=44  Identities=23%  Similarity=0.157  Sum_probs=30.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..||.++.|.|...+.+.++  .++.+..    .+.|+++|.||+||.+.
T Consensus        23 ~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~   66 (287)
T PRK09563         23 KLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADP   66 (287)
T ss_pred             hhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCH
Confidence            68999999999877654332  1222222    25789999999999643

>cd04165 GTPBP1_like GTPBP1-like

Probab=96.33  E-value=0.019  Score=35.68  Aligned_cols=45  Identities=20%  Similarity=0.093  Sum_probs=29.7

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .+|++++|.|.....+ .....++..+..   .+.|+++|.||+|+.+.
T Consensus       109 ~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvNK~D~~~~  153 (224)
T cd04165         109 APDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVTKIDLAPA  153 (224)
T ss_pred             CCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEECccccCH
Confidence            5789999999765432 222334444433   34789999999998544

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

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=96.28  E-value=0.018  Score=36.19  Aligned_cols=52  Identities=17%  Similarity=0.256  Sum_probs=35.3

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHH---HHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVS---RWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~---~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ...| +++.++|+|+|+.+.+-.+.+.   ..+..+.+.. +++.+.+.-+|.|+-.
T Consensus        71 ~~if-~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l~  125 (232)
T PF04670_consen   71 EEIF-SNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLLS  125 (232)
T ss_dssp             HHHH-CTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS-
T ss_pred             HHHH-hccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccCC
Confidence            3457 9999999999999665444444   3444445554 8999999999999853

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>COG1084 Predicted GTPase [General function prediction only]

Probab=96.28  E-value=0.015  Score=38.35  Aligned_cols=53  Identities=19%  Similarity=0.228  Sum_probs=38.3

Q ss_pred             CcEEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHH
Q 038356           11 ALGALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus        11 a~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      ++++++++|.+...  |.+.=.+.+++++....  .|+++|.||.|+.+...+.+..
T Consensus       248 ~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~~~~~  302 (346)
T COG1084         248 AGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKLEEIE  302 (346)
T ss_pred             cCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHHHHHH
Confidence            35678899988765  44554567778877653  8999999999998655555443

>PRK01889 GTPase RsgA; Reviewed

Probab=96.26  E-value=0.018  Score=38.15  Aligned_cols=47  Identities=15%  Similarity=0.168  Sum_probs=33.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++|.+++|.+....-+...+..++..+..   .+++.++|.||+||.+.
T Consensus       111 ANvD~vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~~~  157 (356)
T PRK01889        111 ANVDTVFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLCED  157 (356)
T ss_pred             EeCCEEEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcCCC
Confidence            578999999999644444455666655543   34677889999999654

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=96.24  E-value=0.019  Score=40.62  Aligned_cols=43  Identities=23%  Similarity=0.112  Sum_probs=29.5

Q ss_pred             cCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~~   58 (78)
                      .++|++++|+|.++   +.+.+.+.    .+..   .++| +++|.||+|+.++
T Consensus        73 ~~~D~~lLVVda~eg~~~qT~ehl~----il~~---lgi~~iIVVlNKiDlv~~  119 (614)
T PRK10512         73 GGIDHALLVVACDDGVMAQTREHLA----ILQL---TGNPMLTVALTKADRVDE  119 (614)
T ss_pred             hcCCEEEEEEECCCCCcHHHHHHHH----HHHH---cCCCeEEEEEECCccCCH
Confidence            68999999999887   45555442    2222   1244 5799999999653

>PRK13768 GTPase; Provisional

Probab=96.19  E-value=0.011  Score=37.32  Aligned_cols=50  Identities=14%  Similarity=-0.018  Sum_probs=31.5

Q ss_pred             CcEEEEEEECCChhhHHHH--HHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356           11 ALGALLVYDVTKSTTFENV--SRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus        11 a~~~ilv~d~~~~~s~~~~--~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +++++++.|.+...+-...  ..|....... ..+.|+++|.||+|+....+.
T Consensus       129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~~~~~  180 (253)
T PRK13768        129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLSEEEL  180 (253)
T ss_pred             CeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcCchhH
Confidence            7899999999654433222  2333322222 246899999999998655443

>TIGR00485 EF-Tu translation elongation factor TU

Probab=96.16  E-value=0.023  Score=37.94  Aligned_cols=43  Identities=23%  Similarity=0.189  Sum_probs=27.1

Q ss_pred             cCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeE-EEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVI-MMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~-~lvgnK~Dl~~~   58 (78)
                      .++|++++|+|.++   ..+.+.+    ..+..   .++|. +++.||+|+.+.
T Consensus        97 ~~~D~~ilVvda~~g~~~qt~e~l----~~~~~---~gi~~iIvvvNK~Dl~~~  143 (394)
T TIGR00485        97 AQMDGAILVVSATDGPMPQTREHI----LLARQ---VGVPYIVVFLNKCDMVDD  143 (394)
T ss_pred             hhCCEEEEEEECCCCCcHHHHHHH----HHHHH---cCCCEEEEEEEecccCCH
Confidence            35699999999987   3333222    22322   24554 578999998653

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=95.90  E-value=0.042  Score=37.56  Aligned_cols=44  Identities=23%  Similarity=0.225  Sum_probs=29.7

Q ss_pred             cCCcEEEEEEECCCh-hhHH-HHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKS-TTFE-NVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~-~s~~-~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..||++++|.|...- ...+ .+.+|+   +   ..+.|+++|.||+|-...
T Consensus        82 ~eADvilfvVD~~~Git~~D~~ia~~L---r---~~~kpviLvvNK~D~~~~  127 (444)
T COG1160          82 EEADVILFVVDGREGITPADEEIAKIL---R---RSKKPVILVVNKIDNLKA  127 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHHHHHHHHH---H---hcCCCEEEEEEcccCchh
Confidence            689999999997652 2222 223333   2   256899999999997643

>PRK12736 elongation factor Tu; Reviewed

Probab=95.86  E-value=0.038  Score=36.98  Aligned_cols=45  Identities=20%  Similarity=0.203  Sum_probs=27.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      +.+|++++|.|.++.-. ......+..+..   .++| ++++.||+|+.+
T Consensus        97 ~~~d~~llVvd~~~g~~-~~t~~~~~~~~~---~g~~~~IvviNK~D~~~  142 (394)
T PRK12736         97 AQMDGAILVVAATDGPM-PQTREHILLARQ---VGVPYLVVFLNKVDLVD  142 (394)
T ss_pred             hhCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCEEEEEEEecCCcc
Confidence            46799999999876211 111222223332   2466 678999999864

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.76  E-value=0.007  Score=39.06  Aligned_cols=45  Identities=20%  Similarity=0.429  Sum_probs=33.9

Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356           11 ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus        11 a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..++++|||.+....+..++.|+....-+.  --..+.+|||.|-..
T Consensus        79 l~a~vmvfdlse~s~l~alqdwl~htdins--fdillcignkvdrvp  123 (418)
T KOG4273|consen   79 LQAFVMVFDLSEKSGLDALQDWLPHTDINS--FDILLCIGNKVDRVP  123 (418)
T ss_pred             eeeEEEEEeccchhhhHHHHhhcccccccc--chhheeccccccccc
Confidence            478999999999999999999986543321  123467899999643

>PRK09866 hypothetical protein; Provisional

Probab=95.75  E-value=0.037  Score=39.77  Aligned_cols=47  Identities=17%  Similarity=0.178  Sum_probs=31.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++|++++|.|.++.-+... ....+.+++. +...|+++|.||+|+.+
T Consensus       257 ~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~d  303 (741)
T PRK09866        257 ARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQD  303 (741)
T ss_pred             hhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCC
Confidence            78999999999987543332 1223333332 23469999999999854

>cd01884 EF_Tu EF-Tu subfamily

Probab=95.75  E-value=0.066  Score=32.53  Aligned_cols=45  Identities=22%  Similarity=0.223  Sum_probs=28.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      +.+|++++|.|.+..-+ ......+..+..   .+.| ++++.||+|+..
T Consensus        87 ~~~D~~ilVvda~~g~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~~  132 (195)
T cd01884          87 AQMDGAILVVSATDGPM-PQTREHLLLARQ---VGVPYIVVFLNKADMVD  132 (195)
T ss_pred             hhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCcEEEEEeCCCCCC
Confidence            57999999999876321 112223333333   2355 778899999853

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=95.60  E-value=0.029  Score=38.46  Aligned_cols=46  Identities=20%  Similarity=0.061  Sum_probs=32.5

Q ss_pred             cCCcEEEEEEECCCh-hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKS-TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..||.+++|.|.+.+ +..+...-+      ..+++.|+++|.||.||..+..
T Consensus       295 ~~ADlvL~v~D~~~~~~~~d~~~~~------~~~~~~~~i~v~NK~DL~~~~~  341 (454)
T COG0486         295 EEADLVLFVLDASQPLDKEDLALIE------LLPKKKPIIVVLNKADLVSKIE  341 (454)
T ss_pred             HhCCEEEEEEeCCCCCchhhHHHHH------hcccCCCEEEEEechhcccccc
Confidence            689999999999985 222221111      2346789999999999976544

>cd01850 CDC_Septin CDC/Septin

Probab=95.60  E-value=0.015  Score=37.13  Aligned_cols=16  Identities=19%  Similarity=0.179  Sum_probs=13.4

Q ss_pred             CCCeEEEEeeCCCCCC
Q 038356           42 SNIVIMMIGNKTDLKH   57 (78)
Q Consensus        42 ~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|+++|+||+|+-.
T Consensus       142 ~~v~vi~VinK~D~l~  157 (276)
T cd01850         142 KRVNIIPVIAKADTLT  157 (276)
T ss_pred             ccCCEEEEEECCCcCC
Confidence            3689999999999844

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=95.42  E-value=0.03  Score=40.20  Aligned_cols=48  Identities=17%  Similarity=0.075  Sum_probs=30.6

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+ +.+|++++|+|..+--.-+....|.. ..   ..+.|.+++.||+|...
T Consensus       105 ~al-~~aD~~llVvda~~g~~~~t~~~~~~-~~---~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490       105 RAM-RAVDGAIVVVCAVEGVMPQTETVLRQ-AL---KENVKPVLFINKVDRLI  152 (720)
T ss_pred             HHH-HhcCEEEEEEecCCCCCccHHHHHHH-HH---HcCCCEEEEEEChhccc
Confidence            356 89999999999877322111122321 21   24467789999999853

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.33  E-value=0.11  Score=32.63  Aligned_cols=53  Identities=23%  Similarity=0.285  Sum_probs=34.6

Q ss_pred             CCcEEEEEEECCC-hhhHHHHHHHHHHH-hhh--cCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTK-STTFENVSRWLKDL-GDH--ADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~-~~s~~~~~~~~~~~-~~~--~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .+-++++|.|..- ..-...+..++-.+ .+.  +...+|++++.||.|+-..+..+
T Consensus       108 ~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~  164 (238)
T KOG0090|consen  108 SAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAE  164 (238)
T ss_pred             cceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHH
Confidence            6788888887543 34455554444444 333  24679999999999997655433

>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=95.33  E-value=0.042  Score=32.56  Aligned_cols=57  Identities=16%  Similarity=0.012  Sum_probs=36.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc----hHHHHhccCc
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS----MSIFQSLSGL   71 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v----~~~~~~~~~~   71 (78)
                      ...|+++.|.|.++.+.=   .....++.+   -+.|++++.||+|....+.+    ....+.++.+
T Consensus        77 ~~~D~ii~VvDa~~l~r~---l~l~~ql~e---~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~p  137 (156)
T PF02421_consen   77 EKPDLIIVVVDATNLERN---LYLTLQLLE---LGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVP  137 (156)
T ss_dssp             TSSSEEEEEEEGGGHHHH---HHHHHHHHH---TTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-
T ss_pred             cCCCEEEEECCCCCHHHH---HHHHHHHHH---cCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCC
Confidence            578999999999875432   223334443   35899999999998654433    3445555443

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 ....

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=95.31  E-value=0.075  Score=35.44  Aligned_cols=49  Identities=18%  Similarity=0.114  Sum_probs=34.6

Q ss_pred             CCcEEEEEEECCChhh---HHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCC
Q 038356           10 GALGALLVYDVTKSTT---FENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHL   58 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s---~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~   58 (78)
                      .+...+.|.|++..+-   .+..+....++..+.+  .+.|.+||.||+|+...
T Consensus       237 Rt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~  290 (369)
T COG0536         237 RTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLD  290 (369)
T ss_pred             hhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcC
Confidence            4567888999987653   5555556666655542  56789999999996443

>PRK12739 elongation factor G; Reviewed

Probab=95.28  E-value=0.07  Score=38.19  Aligned_cols=48  Identities=17%  Similarity=0.138  Sum_probs=31.9

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .+ +.+|++++|.|.++.-.-.. +..+..+..   .+.|.+++.||+|+.+.
T Consensus        93 al-~~~D~~ilVvDa~~g~~~qt-~~i~~~~~~---~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         93 SL-RVLDGAVAVFDAVSGVEPQS-ETVWRQADK---YGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HH-HHhCeEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            45 78999999999876532221 222223332   45788999999999753

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=94.94  E-value=0.18  Score=32.27  Aligned_cols=53  Identities=19%  Similarity=0.244  Sum_probs=39.4

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHH---HHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLK---DLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~---~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..-| ++.++.|.|||+.+++--..+..+.+   .+.++ +|...++..-.|.||...
T Consensus        76 d~iF-~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~~  131 (295)
T KOG3886|consen   76 DNIF-RNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQE  131 (295)
T ss_pred             hhhh-eeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhccc
Confidence            3456 89999999999999875555544443   33444 488899999999999654

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.87  E-value=0.22  Score=27.20  Aligned_cols=37  Identities=22%  Similarity=0.284  Sum_probs=26.0

Q ss_pred             cCCcEEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeC
Q 038356            9 RGALGALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNK   52 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK   52 (78)
                      +.+|++++|+|.+++.  +..++   +++++    ...|+++|.||
T Consensus        78 ~~~d~ii~vv~~~~~~~~~~~~~---~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   78 SKSDLIIYVVDASNPITEDDKNI---LRELK----NKKPIILVLNK  116 (116)
T ss_dssp             CTESEEEEEEETTSHSHHHHHHH---HHHHH----TTSEEEEEEES
T ss_pred             HHCCEEEEEEECCCCCCHHHHHH---HHHHh----cCCCEEEEEcC
Confidence            6889999999987742  33333   33332    56899999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=94.86  E-value=0.046  Score=36.41  Aligned_cols=52  Identities=13%  Similarity=0.225  Sum_probs=35.2

Q ss_pred             cccchhcCCcEEEEEEECCCh----------hhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKS----------TTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDL   55 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl   55 (78)
                      |-.+| .+++++|+|.++++-          ..+......++.+-... -.+.|++|+-||.|+
T Consensus       253 W~~~F-~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  253 WIHCF-EDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             GGGGG-TTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             HHHHh-ccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            45788 999999999997642          22444444444443322 267999999999997

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=94.67  E-value=0.086  Score=35.16  Aligned_cols=54  Identities=11%  Similarity=0.198  Sum_probs=36.9

Q ss_pred             cccchhcCCcEEEEEEECCChh----------hHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKST----------TFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~----------s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      |.++| .+++++|+|.++++-+          .+....+.++.+-.+. =.+.+++|.-||.||-+
T Consensus       212 WihcF-e~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFe  276 (354)
T KOG0082|consen  212 WIHCF-EDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFE  276 (354)
T ss_pred             HHHhh-cCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHH
Confidence            34678 9999999999988743          2222334444443332 25799999999999954

>PRK12735 elongation factor Tu; Reviewed

Probab=94.67  E-value=0.18  Score=33.83  Aligned_cols=45  Identities=16%  Similarity=0.164  Sum_probs=27.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEE-EEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIM-MIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-lvgnK~Dl~~   57 (78)
                      .++|++++|+|.++... ......+..+..   .++|.+ ++.||+|+.+
T Consensus        97 ~~aD~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~  142 (396)
T PRK12735         97 AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             ccCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcc
Confidence            46799999999886321 122223333332   346754 6799999964

>PRK00007 elongation factor G; Reviewed

Probab=94.30  E-value=0.19  Score=36.07  Aligned_cols=46  Identities=20%  Similarity=0.260  Sum_probs=30.1

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.+|++++|.|...--.-.....| ..+.+   .+.|.+++.||+|+.+.
T Consensus        97 ~~~D~~vlVvda~~g~~~qt~~~~-~~~~~---~~~p~iv~vNK~D~~~~  142 (693)
T PRK00007         97 RVLDGAVAVFDAVGGVEPQSETVW-RQADK---YKVPRIAFVNKMDRTGA  142 (693)
T ss_pred             HHcCEEEEEEECCCCcchhhHHHH-HHHHH---cCCCEEEEEECCCCCCC
Confidence            678999999997654322222223 23332   34788999999998753

>PLN03126 Elongation factor Tu; Provisional

Probab=94.14  E-value=0.2  Score=34.56  Aligned_cols=45  Identities=16%  Similarity=0.128  Sum_probs=29.5

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.++-.. ...+.++..+..   .++| ++++.||+|+.+
T Consensus       166 ~~aD~ailVVda~~G~~-~qt~e~~~~~~~---~gi~~iIvvvNK~Dl~~  211 (478)
T PLN03126        166 AQMDGAILVVSGADGPM-PQTKEHILLAKQ---VGVPNMVVFLNKQDQVD  211 (478)
T ss_pred             hhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCeEEEEEecccccC
Confidence            46799999999875422 222333334433   3466 778999999965

>CHL00071 tufA elongation factor Tu

Probab=93.91  E-value=0.25  Score=33.30  Aligned_cols=45  Identities=18%  Similarity=0.164  Sum_probs=29.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      +.+|++++|.|.+..-. ......+..+..   .++| ++++.||+|+.+
T Consensus        97 ~~~D~~ilVvda~~g~~-~qt~~~~~~~~~---~g~~~iIvvvNK~D~~~  142 (409)
T CHL00071         97 AQMDGAILVVSAADGPM-PQTKEHILLAKQ---VGVPNIVVFLNKEDQVD  142 (409)
T ss_pred             HhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEEccCCCC
Confidence            57899999999875321 222233333332   3467 778999999965

>COG1159 Era GTPase [General function prediction only]

Probab=93.88  E-value=0.3  Score=31.92  Aligned_cols=47  Identities=19%  Similarity=0.186  Sum_probs=31.5

Q ss_pred             cCCcEEEEEEECCCh-hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKS-TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++|.+++|.|.+.. ...+.  .-++.+++   .+.|++++.||+|......
T Consensus        84 ~dvDlilfvvd~~~~~~~~d~--~il~~lk~---~~~pvil~iNKID~~~~~~  131 (298)
T COG1159          84 KDVDLILFVVDADEGWGPGDE--FILEQLKK---TKTPVILVVNKIDKVKPKT  131 (298)
T ss_pred             ccCcEEEEEEeccccCCccHH--HHHHHHhh---cCCCeEEEEEccccCCcHH
Confidence            789999999998873 22222  12222332   4579999999999765544

>PTZ00416 elongation factor 2; Provisional

Probab=93.85  E-value=0.14  Score=37.52  Aligned_cols=44  Identities=23%  Similarity=0.221  Sum_probs=29.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +.+|++|+|.|.++--.-..-.-| ..+..   .+.|++++.||+|+.
T Consensus       114 ~~~D~ailVvda~~g~~~~t~~~~-~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416        114 RVTDGALVVVDCVEGVCVQTETVL-RQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             hcCCeEEEEEECCCCcCccHHHHH-HHHHH---cCCCEEEEEEChhhh
Confidence            789999999998764222211223 33332   357999999999986

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=93.78  E-value=0.18  Score=37.04  Aligned_cols=44  Identities=23%  Similarity=0.139  Sum_probs=29.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +.+|++|+|.|.+.--.-...+.|. .+.   ..+.|++++.||+|..
T Consensus       120 ~~~D~ailVvda~~Gv~~~t~~~~~-~~~---~~~~p~i~~iNK~D~~  163 (843)
T PLN00116        120 RITDGALVVVDCIEGVCVQTETVLR-QAL---GERIRPVLTVNKMDRC  163 (843)
T ss_pred             hhcCEEEEEEECCCCCcccHHHHHH-HHH---HCCCCEEEEEECCccc
Confidence            6789999999987643222223332 222   2468999999999986

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=93.72  E-value=0.23  Score=34.24  Aligned_cols=47  Identities=23%  Similarity=0.166  Sum_probs=27.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.++...-...+..+..+...  .-.++++|-||+|+.+
T Consensus       139 ~~~D~alLVVda~~g~~~~qT~ehl~i~~~l--gi~~iIVvlNKiDlv~  185 (460)
T PTZ00327        139 AVMDAALLLIAANESCPQPQTSEHLAAVEIM--KLKHIIILQNKIDLVK  185 (460)
T ss_pred             hhCCEEEEEEECCCCccchhhHHHHHHHHHc--CCCcEEEEEecccccC
Confidence            4689999999998631111111222222211  2246889999999965

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=93.69  E-value=0.51  Score=27.78  Aligned_cols=45  Identities=29%  Similarity=0.347  Sum_probs=33.2

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|.++++...+ ..+...+..+.+.+++.   +.|+.+|.||.|...
T Consensus       113 ~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~  157 (179)
T cd03110         113 TGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLND  157 (179)
T ss_pred             HcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc
Confidence            6899999998766 44666777777666543   356789999999754

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=93.65  E-value=0.3  Score=34.14  Aligned_cols=41  Identities=22%  Similarity=0.172  Sum_probs=30.7

Q ss_pred             CCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356           10 GALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus        10 ~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      =+|.+|||.++++   +.+.+.+.+-    +   ..++|+++..||+|..+
T Consensus        78 vtDIaILVVa~dDGv~pQTiEAI~ha----k---~a~vP~iVAiNKiDk~~  121 (509)
T COG0532          78 VTDIAILVVAADDGVMPQTIEAINHA----K---AAGVPIVVAINKIDKPE  121 (509)
T ss_pred             cccEEEEEEEccCCcchhHHHHHHHH----H---HCCCCEEEEEecccCCC
Confidence            3588999999887   5666655332    1   25799999999999874

>PRK00049 elongation factor Tu; Reviewed

Probab=93.48  E-value=0.34  Score=32.53  Aligned_cols=45  Identities=16%  Similarity=0.164  Sum_probs=29.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEE-EEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIM-MIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.++.-. ...+..+..+..   .++|.+ ++.||+|+.+
T Consensus        97 ~~aD~~llVVDa~~g~~-~qt~~~~~~~~~---~g~p~iiVvvNK~D~~~  142 (396)
T PRK00049         97 AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             ccCCEEEEEEECCCCCc-hHHHHHHHHHHH---cCCCEEEEEEeecCCcc
Confidence            68999999999876321 222333333433   346765 6899999864

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=93.23  E-value=0.36  Score=30.80  Aligned_cols=49  Identities=18%  Similarity=0.249  Sum_probs=33.5

Q ss_pred             cCCcEEEEEEECCChh-------hHHH----HHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKST-------TFEN----VSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~-------s~~~----~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..+|+|++.|+.+.-       .+..    ++.-+.++.+..+-.+|+.++-||+|+-.
T Consensus        24 ~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~~~PVYvv~Tk~D~l~   83 (266)
T PF14331_consen   24 QPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGVRLPVYVVFTKCDLLP   83 (266)
T ss_pred             CCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCCCCCeEeeeECCCccc
Confidence            4569999999976421       1222    23445555555567899999999999853

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=93.09  E-value=0.11  Score=36.28  Aligned_cols=57  Identities=11%  Similarity=0.071  Sum_probs=38.6

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      .+|.++.+.|.-++--|.. .+....+++.. ++...+|+-||+||....++..++.-.
T Consensus       174 rSDivvqIVDARnPllfr~-~dLe~Yvke~d-~~K~~~LLvNKaDLl~~~qr~aWa~YF  230 (562)
T KOG1424|consen  174 RSDIVVQIVDARNPLLFRS-PDLEDYVKEVD-PSKANVLLVNKADLLPPEQRVAWAEYF  230 (562)
T ss_pred             hcceEEEEeecCCccccCC-hhHHHHHhccc-cccceEEEEehhhcCCHHHHHHHHHHH
Confidence            6899999999988866543 22333333332 456678999999998776666555444

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=92.96  E-value=0.24  Score=37.63  Aligned_cols=48  Identities=15%  Similarity=0.265  Sum_probs=37.0

Q ss_pred             cCCcEEEEEEECCChhh---------HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTT---------FENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s---------~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +..+|+|++.|+.+.-+         -..++..+.++.+..+-.+|+.++-+|+|+-
T Consensus       200 ~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       200 QPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLL  256 (1169)
T ss_pred             CCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhh
Confidence            46799999999776421         1345677777777777899999999999975

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PLN03127 Elongation factor Tu; Provisional

Probab=92.75  E-value=0.38  Score=32.98  Aligned_cols=45  Identities=13%  Similarity=0.164  Sum_probs=27.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.++... ...+..+..+..   .++| ++++.||+|+.+
T Consensus       146 ~~aD~allVVda~~g~~-~qt~e~l~~~~~---~gip~iIvviNKiDlv~  191 (447)
T PLN03127        146 AQMDGGILVVSAPDGPM-PQTKEHILLARQ---VGVPSLVVFLNKVDVVD  191 (447)
T ss_pred             hhCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEeeccCC
Confidence            46899999999865321 112222222332   3467 578899999964

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=92.73  E-value=0.32  Score=34.26  Aligned_cols=51  Identities=14%  Similarity=0.129  Sum_probs=33.9

Q ss_pred             EEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356           13 GALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus        13 ~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++++.|++..-  |.+.=-+.++.++... .+-|+++|.||+|+.....+++.
T Consensus       250 aVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~  302 (620)
T KOG1490|consen  250 AVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQK  302 (620)
T ss_pred             hheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHH
Confidence            567777888764  3333334555555444 67899999999999766555543

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=92.65  E-value=0.29  Score=33.00  Aligned_cols=46  Identities=20%  Similarity=0.016  Sum_probs=27.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.+..-.-...+.|. .+...  ...+++++.||+|+.+
T Consensus       102 ~~aD~allVVda~~G~~~qt~~~~~-~~~~~--~~~~iivviNK~D~~~  147 (406)
T TIGR02034       102 STADLAVLLVDARKGVLEQTRRHSY-IASLL--GIRHVVLAVNKMDLVD  147 (406)
T ss_pred             hhCCEEEEEEECCCCCccccHHHHH-HHHHc--CCCcEEEEEEeccccc
Confidence            6889999999986532111111221 12221  2236889999999864

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).

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=92.63  E-value=0.2  Score=36.48  Aligned_cols=43  Identities=28%  Similarity=0.398  Sum_probs=30.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      +-+|++++|+|+..-=+++- ...++..   ...+.|+++|.||.|.
T Consensus       219 ~~sDgvVlvvDv~EGVmlnt-Er~ikha---iq~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  219 RLSDGVVLVVDVAEGVMLNT-ERIIKHA---IQNRLPIVVVINKVDR  261 (971)
T ss_pred             hhcceEEEEEEcccCceeeH-HHHHHHH---HhccCcEEEEEehhHH
Confidence            78999999999876555542 2222222   2367899999999995

>PRK07560 elongation factor EF-2; Reviewed

Probab=92.48  E-value=0.27  Score=35.55  Aligned_cols=44  Identities=18%  Similarity=0.144  Sum_probs=28.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +.+|++++|.|...--.-..-..|. .+.+   .+.|.+++.||+|+.
T Consensus       109 ~~~D~avlVvda~~g~~~~t~~~~~-~~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        109 RAVDGAIVVVDAVEGVMPQTETVLR-QALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             HhcCEEEEEEECCCCCCccHHHHHH-HHHH---cCCCeEEEEECchhh
Confidence            7899999999977643222223333 2222   235678999999975

>COG1161 Predicted GTPases [General function prediction only]

Probab=92.25  E-value=0.096  Score=34.31  Aligned_cols=52  Identities=15%  Similarity=0.088  Sum_probs=34.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ...|.++-|.|.-++.+..+     ..+.+.. .+.|.++|.||+||.+......+..
T Consensus        33 ~~~d~vvevvDar~P~~s~~-----~~l~~~v-~~k~~i~vlNK~DL~~~~~~~~W~~   84 (322)
T COG1161          33 KSVDVVVEVVDARDPLGTRN-----PELERIV-KEKPKLLVLNKADLAPKEVTKKWKK   84 (322)
T ss_pred             ccCCEEEEEEeccccccccC-----ccHHHHH-ccCCcEEEEehhhcCCHHHHHHHHH
Confidence            57899999999999876543     2333333 3344499999999987554443333

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=92.21  E-value=0.55  Score=27.09  Aligned_cols=47  Identities=17%  Similarity=0.140  Sum_probs=31.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKT   53 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~   53 (78)
                      +..|. +.+|++++|.+.+..-+-.....|.+......   ...++|-||.
T Consensus       122 ~~~~~-~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~---~~~i~V~nk~  168 (168)
T PF00350_consen  122 TEEYL-PKADVVIFVVDANQDLTESDMEFLKQMLDPDK---SRTIFVLNKA  168 (168)
T ss_dssp             HHHHH-STTEEEEEEEETTSTGGGHHHHHHHHHHTTTC---SSEEEEEE-G
T ss_pred             HHHhh-ccCCEEEEEeccCcccchHHHHHHHHHhcCCC---CeEEEEEcCC
Confidence            45678 99999999999988655444455554444332   3377888874

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=91.74  E-value=0.16  Score=36.18  Aligned_cols=51  Identities=12%  Similarity=0.363  Sum_probs=41.2

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~   56 (78)
                      +|. ..+|++|+||.+.+..+|+.++.....+.... ...+|++++|++.-..
T Consensus        91 Qft-~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS  142 (749)
T KOG0705|consen   91 QFC-QWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHIS  142 (749)
T ss_pred             hhh-hhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhh
Confidence            455 78899999999999999999988877775443 3678999999976543

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=91.67  E-value=0.4  Score=33.04  Aligned_cols=46  Identities=17%  Similarity=0.002  Sum_probs=26.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.+|++++|.|.+..-.=.....|. .+...  ...|++++.||+|+.+
T Consensus       129 ~~aD~allVVDa~~G~~~qt~~~~~-l~~~l--g~~~iIvvvNKiD~~~  174 (474)
T PRK05124        129 STCDLAILLIDARKGVLDQTRRHSF-IATLL--GIKHLVVAVNKMDLVD  174 (474)
T ss_pred             hhCCEEEEEEECCCCccccchHHHH-HHHHh--CCCceEEEEEeecccc
Confidence            6889999999986531100011121 11111  1237889999999864

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=91.35  E-value=0.46  Score=33.76  Aligned_cols=46  Identities=20%  Similarity=0.054  Sum_probs=27.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|.+.... ...+.....+...  ...+++++.||+|+.+
T Consensus       126 ~~aD~~llVvda~~g~~-~~t~e~~~~~~~~--~~~~iivvvNK~D~~~  171 (632)
T PRK05506        126 STADLAIILVDARKGVL-TQTRRHSFIASLL--GIRHVVLAVNKMDLVD  171 (632)
T ss_pred             HhCCEEEEEEECCCCcc-ccCHHHHHHHHHh--CCCeEEEEEEeccccc
Confidence            67899999999865321 1111111122222  2357889999999864

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

Probab=91.28  E-value=0.32  Score=28.52  Aligned_cols=48  Identities=19%  Similarity=0.072  Sum_probs=31.4

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC-CCCCchHH
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK-HLPTSMSI   64 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~-~~~~v~~~   64 (78)
                      +||.++++.|.+++.+.-     -..+...  =+.|++=|-||+|+. +..++...
T Consensus        63 dad~V~ll~dat~~~~~~-----pP~fa~~--f~~pvIGVITK~Dl~~~~~~i~~a  111 (143)
T PF10662_consen   63 DADVVLLLQDATEPRSVF-----PPGFASM--FNKPVIGVITKIDLPSDDANIERA  111 (143)
T ss_pred             hCCEEEEEecCCCCCccC-----Cchhhcc--cCCCEEEEEECccCccchhhHHHH
Confidence            789999999999875421     0111111  146899999999998 44455543

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

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=90.85  E-value=1.3  Score=31.61  Aligned_cols=47  Identities=26%  Similarity=0.385  Sum_probs=29.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .-++|+++|.|.+.---=.-+..++..+    +.+..++.|-||+|++..+
T Consensus       147 aac~G~lLvVDA~qGvqAQT~anf~lAf----e~~L~iIpVlNKIDlp~ad  193 (650)
T KOG0462|consen  147 AACDGALLVVDASQGVQAQTVANFYLAF----EAGLAIIPVLNKIDLPSAD  193 (650)
T ss_pred             hhcCceEEEEEcCcCchHHHHHHHHHHH----HcCCeEEEeeeccCCCCCC
Confidence            4579999999976532111122222222    2567889999999998653

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=90.39  E-value=2.2  Score=28.83  Aligned_cols=63  Identities=13%  Similarity=0.196  Sum_probs=47.8

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      .+. .++|.+++|.+. +-.|+.+.++.++.+++..+++.+..++.||.+-....+.++..+.++
T Consensus       235 ~vL-~~Sd~iviv~e~-sl~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~~~~~~dl~~~~~  297 (366)
T COG4963         235 QVL-SGSDEIVIVAEP-SLASLRNAKELLDELKRLRPNDPKPILVLNRVGVPKRPEPSDLEEILG  297 (366)
T ss_pred             HHH-hcCCeEEEEecc-cHHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCCCCCCHHHHHHHhC
Confidence            455 799999999976 467888889999999888877888899999998754444344444443

>TIGR00101 ureG urease accessory protein UreG

Probab=90.35  E-value=0.29  Score=29.88  Aligned_cols=38  Identities=24%  Similarity=0.193  Sum_probs=25.2

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeE--EEEeeCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVI--MMIGNKTDLKH   57 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~--~lvgnK~Dl~~   57 (78)
                      -++++|.|+|.++-++...  .+.        +.+..  +++.||+|+.+
T Consensus       112 l~~~~i~vvD~~~~~~~~~--~~~--------~qi~~ad~~~~~k~d~~~  151 (199)
T TIGR00101       112 LADLTIFVIDVAAGDKIPR--KGG--------PGITRSDLLVINKIDLAP  151 (199)
T ss_pred             hhCcEEEEEEcchhhhhhh--hhH--------hHhhhccEEEEEhhhccc
Confidence            3678999999987666321  111        22333  88999999974

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.

>smart00053 DYNc Dynamin, GTPase

Probab=90.25  E-value=1.1  Score=28.40  Aligned_cols=49  Identities=10%  Similarity=-0.010  Sum_probs=27.9

Q ss_pred             ccchhcCC-cEEEEEEECCC-hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGA-LGALLVYDVTK-STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a-~~~ilv~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..|. ++. +.+++|.|.+. ....+ ....   ++...+...|+++|.||.|..+
T Consensus       156 ~~yi-~~~~~IIL~Vvda~~d~~~~d-~l~i---a~~ld~~~~rti~ViTK~D~~~  206 (240)
T smart00053      156 KQFI-SKEECLILAVTPANVDLANSD-ALKL---AKEVDPQGERTIGVITKLDLMD  206 (240)
T ss_pred             HHHH-hCccCeEEEEEECCCCCCchh-HHHH---HHHHHHcCCcEEEEEECCCCCC
Confidence            4567 744 46677776543 22111 1122   2222235689999999999864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd01882 BMS1 Bms1

Probab=90.25  E-value=1.1  Score=27.68  Aligned_cols=45  Identities=22%  Similarity=0.146  Sum_probs=27.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      +.+|.++++.|.+....-.. ......+..   .+.| +++|.||.|+.+
T Consensus       102 k~aDvVllviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~  147 (225)
T cd01882         102 KVADLVLLLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFK  147 (225)
T ss_pred             HhcCEEEEEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCC
Confidence            57899999999875432211 222223322   2356 455999999853

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>COG1162 Predicted GTPases [General function prediction only]

Probab=89.70  E-value=2.1  Score=28.14  Aligned_cols=49  Identities=18%  Similarity=0.171  Sum_probs=32.1

Q ss_pred             CCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356           10 GALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +.|-.+++++..+++ +...+..++-.+..   .++.-++|-||+||.+....
T Consensus        79 n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~  128 (301)
T COG1162          79 NNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEA  128 (301)
T ss_pred             ccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHH
Confidence            567777777877776 55555555544332   45666778999999765433

>KOG2484 consensus GTPase [General function prediction only]

Probab=89.42  E-value=0.6  Score=31.90  Aligned_cols=53  Identities=17%  Similarity=0.079  Sum_probs=35.9

Q ss_pred             CCcEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356           10 GALGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      .+|++|-|.|.-|+.+-.+  +..|.-.  .  +++-..|+|-||.||-....+..+..
T Consensus       146 ~sDVVleVlDARDPlgtR~~~vE~~V~~--~--~gnKkLILVLNK~DLVPrEv~e~Wl~  200 (435)
T KOG2484|consen  146 ASDVVLEVLDARDPLGTRCPEVEEAVLQ--A--HGNKKLILVLNKIDLVPREVVEKWLV  200 (435)
T ss_pred             hhheEEEeeeccCCCCCCChhHHHHHHh--c--cCCceEEEEeehhccCCHHHHHHHHH
Confidence            5799999999999876443  3444322  1  24477899999999976544444433

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=89.28  E-value=3  Score=27.23  Aligned_cols=57  Identities=19%  Similarity=0.131  Sum_probs=39.2

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSG   70 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~   70 (78)
                      .+||.+|+|-..| +.++..++.-++-++..   ++|..+|-||.++... .+.+...+.+.
T Consensus       184 ~~aD~ai~VTEPT-p~glhD~kr~~el~~~f---~ip~~iViNr~~~g~s-~ie~~~~e~gi  240 (284)
T COG1149         184 KGADLAILVTEPT-PFGLHDLKRALELVEHF---GIPTGIVINRYNLGDS-EIEEYCEEEGI  240 (284)
T ss_pred             ccCCEEEEEecCC-ccchhHHHHHHHHHHHh---CCceEEEEecCCCCch-HHHHHHHHcCC
Confidence            6899999986554 45666666655555443   4899999999976554 56666555543

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=88.94  E-value=0.36  Score=32.10  Aligned_cols=46  Identities=26%  Similarity=0.235  Sum_probs=31.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..||++++++|.++....-+ ..-++.+...  ..+|-++|-||.|...
T Consensus       154 q~AD~vvVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k  199 (379)
T KOG1423|consen  154 QNADCVVVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLK  199 (379)
T ss_pred             hhCCEEEEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcch
Confidence            57999999999997443322 2223333333  4688899999999753

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=88.47  E-value=1.8  Score=23.86  Aligned_cols=40  Identities=10%  Similarity=0.116  Sum_probs=29.2

Q ss_pred             EEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCC
Q 038356           14 ALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKT   53 (78)
Q Consensus        14 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~   53 (78)
                      -+++.+.++...+..+.++.+.+++..++++++++-|+=.
T Consensus        52 dvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~   91 (119)
T cd02067          52 DAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIV   91 (119)
T ss_pred             CEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCC
Confidence            3556677778888999999999988753277777766543

This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=87.88  E-value=0.78  Score=32.14  Aligned_cols=50  Identities=26%  Similarity=0.255  Sum_probs=32.8

Q ss_pred             cCCcEEEEEEEC--CChhhHHHHHHHHHHHhhhc------CCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDV--TKSTTFENVSRWLKDLGDHA------DSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~--~~~~s~~~~~~~~~~~~~~~------~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.||.+++|+|.  ++.++-..+...+.....-.      ...-|++++.||.|+...
T Consensus       347 ~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  347 ERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             hhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            579999999998  55554444434443332221      134789999999999654

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=87.39  E-value=2.2  Score=30.63  Aligned_cols=42  Identities=21%  Similarity=0.192  Sum_probs=30.4

Q ss_pred             cCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.+|.+++|....|   +.+.+.+++       -.+.++|+++.-||+|-++
T Consensus       223 ~vtDIvVLVVAadDGVmpQT~EaIkh-------Ak~A~VpiVvAinKiDkp~  267 (683)
T KOG1145|consen  223 NVTDIVVLVVAADDGVMPQTLEAIKH-------AKSANVPIVVAINKIDKPG  267 (683)
T ss_pred             ccccEEEEEEEccCCccHhHHHHHHH-------HHhcCCCEEEEEeccCCCC
Confidence            35688999997766   566665533       1236799999999999654

>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure

Probab=86.79  E-value=2.6  Score=23.43  Aligned_cols=40  Identities=8%  Similarity=0.293  Sum_probs=27.5

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKT   53 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~   53 (78)
                      ...|+++-||   .+..+.....++.++... .++|+++++++.
T Consensus        38 ~i~avvi~~d---~~~~~~~~~ll~~i~~~~-~~iPVFl~~~~~   77 (115)
T PF03709_consen   38 DIAAVVISWD---GEEEDEAQELLDKIRERN-FGIPVFLLAERD   77 (115)
T ss_dssp             TEEEEEEECH---HHHHHHHHHHHHHHHHHS-TT-EEEEEESCC
T ss_pred             CeeEEEEEcc---cccchhHHHHHHHHHHhC-CCCCEEEEecCC
Confidence            4456666666   555556677777777665 889999999855

Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=85.94  E-value=1  Score=30.96  Aligned_cols=53  Identities=19%  Similarity=0.205  Sum_probs=33.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ..+|.+|++||....+--++.+.-+..++.   ..-.+-+|-||.|.-+..+.-+.
T Consensus       180 eR~D~IiLlfD~hKLDIsdEf~~vi~aLkG---~EdkiRVVLNKADqVdtqqLmRV  232 (532)
T KOG1954|consen  180 ERVDRIILLFDAHKLDISDEFKRVIDALKG---HEDKIRVVLNKADQVDTQQLMRV  232 (532)
T ss_pred             HhccEEEEEechhhccccHHHHHHHHHhhC---CcceeEEEeccccccCHHHHHHH
Confidence            578999999997665544444444444443   33445677899998665444433

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=85.69  E-value=5.3  Score=25.68  Aligned_cols=45  Identities=20%  Similarity=0.242  Sum_probs=29.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +++|.+|+|.|.+ .+|+...+... ++-+.. .=-++.+|.||.|-.
T Consensus       154 ~~vD~vivVvDpS-~~sl~taeri~-~L~~el-g~k~i~~V~NKv~e~  198 (255)
T COG3640         154 EGVDLVIVVVDPS-YKSLRTAERIK-ELAEEL-GIKRIFVVLNKVDEE  198 (255)
T ss_pred             cCCCEEEEEeCCc-HHHHHHHHHHH-HHHHHh-CCceEEEEEeeccch
Confidence            6889999999875 44554443332 222222 135789999999954

>COG0218 Predicted GTPase [General function prediction only]

Probab=85.26  E-value=3.6  Score=25.52  Aligned_cols=44  Identities=16%  Similarity=0.166  Sum_probs=26.2

Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356           11 ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus        11 a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      -.+++++.|....-.=.. ++.++-+..   .++|++++.||+|--..
T Consensus       107 L~~vvlliD~r~~~~~~D-~em~~~l~~---~~i~~~vv~tK~DKi~~  150 (200)
T COG0218         107 LKGVVLLIDARHPPKDLD-REMIEFLLE---LGIPVIVVLTKADKLKK  150 (200)
T ss_pred             heEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCeEEEEEccccCCh
Confidence            456777777655433211 122222222   56999999999997543

>COG1160 Predicted GTPases [General function prediction only]

Probab=85.17  E-value=7.2  Score=27.11  Aligned_cols=46  Identities=26%  Similarity=0.219  Sum_probs=31.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..|+.+++|.|.+..-+-... .....+.+   ...++++|-||.|+-++
T Consensus       259 ~~a~vvllviDa~~~~~~qD~-~ia~~i~~---~g~~~vIvvNKWDl~~~  304 (444)
T COG1160         259 ERADVVLLVIDATEGISEQDL-RIAGLIEE---AGRGIVIVVNKWDLVEE  304 (444)
T ss_pred             hhcCEEEEEEECCCCchHHHH-HHHHHHHH---cCCCeEEEEEccccCCc
Confidence            578999999999886543322 12222222   45788999999998665

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=84.59  E-value=1.8  Score=31.48  Aligned_cols=45  Identities=20%  Similarity=0.235  Sum_probs=29.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      |-+|++++|+|...--.-..-.-|. ++.   ..++|.+++-||+|...
T Consensus        98 rvlDgavvVvdaveGV~~QTEtv~r-qa~---~~~vp~i~fiNKmDR~~  142 (697)
T COG0480          98 RVLDGAVVVVDAVEGVEPQTETVWR-QAD---KYGVPRILFVNKMDRLG  142 (697)
T ss_pred             HhhcceEEEEECCCCeeecHHHHHH-HHh---hcCCCeEEEEECccccc
Confidence            6789999999976532222223343 222   25689999999999754

>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein

Probab=83.71  E-value=3.4  Score=23.80  Aligned_cols=38  Identities=13%  Similarity=0.406  Sum_probs=27.8

Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEE
Q 038356           11 ALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMM   48 (78)
Q Consensus        11 a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~l   48 (78)
                      -||.|+..-++...+=..+..|+..+++..+  ..+|++.
T Consensus        84 ~dGti~Amc~tg~~~~~sL~~WI~~Lq~~NP~L~~ipV~F  123 (126)
T PF14784_consen   84 EDGTIFAMCMTGTSDKDSLLSWIRGLQETNPNLAQIPVLF  123 (126)
T ss_pred             ccceEEEEEeccCCCHHHHHHHHHHHHhhCCchhcceEEE
Confidence            4677777777777777777889999988653  4677654

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.42  E-value=2.9  Score=32.30  Aligned_cols=49  Identities=20%  Similarity=0.300  Sum_probs=35.3

Q ss_pred             cCCcEEEEEEECCChhh---------HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTT---------FENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s---------~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +..+|+|+..|+.+.-+         ...++.-+.++.+...-..|+.++.||.|+-.
T Consensus       213 ~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         213 RPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             CCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence            56789999998765211         22345556677666667899999999999853

>PF08468 MTS_N: Methyltransferase small domain N-terminal; InterPro: IPR013675 This domain is found to the N terminus of the methyltransferase small domain (IPR007848 from INTERPRO) in bacterial proteins []

Probab=83.38  E-value=5.5  Score=23.56  Aligned_cols=51  Identities=12%  Similarity=0.157  Sum_probs=31.3

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      .+|.+|+-|.-    +=+.+..++..+....+++.+++|||-|..  +-+++....+
T Consensus        69 ~~D~vvly~PK----aK~e~~~lL~~l~~~L~~g~~i~vVGEnk~--GIkSa~K~L~  119 (155)
T PF08468_consen   69 DFDTVVLYWPK----AKAEAQYLLANLLSHLPPGTEIFVVGENKG--GIKSAEKQLA  119 (155)
T ss_dssp             T-SEEEEE--S----SHHHHHHHHHHHHTTS-TT-EEEEEEEGGG--TGGGHHHHHT
T ss_pred             CCCEEEEEccC----cHHHHHHHHHHHHHhCCCCCEEEEEecCcc--cHHHHHHHHH
Confidence            57888888844    334556677788887778999999998763  3344444433

; GO: 0008990 rRNA (guanine-N2-)-methyltransferase activity, 0006364 rRNA processing; PDB: 2PJD_A.

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=82.00  E-value=6.9  Score=21.84  Aligned_cols=42  Identities=7%  Similarity=-0.055  Sum_probs=29.0

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKT   53 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~   53 (78)
                      +++.+.  .+.++..+.+.++.+.+.+++...+++++++-|+..
T Consensus        50 ~~d~V~--iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~   91 (122)
T cd02071          50 DVDVIG--LSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIP   91 (122)
T ss_pred             CCCEEE--EcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence            444444  455667788888999999988754567777776643

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	78
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		1e-20
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-20
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-20
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-20
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		7e-20
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		7e-20
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		8e-20
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		4e-19
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		1e-16
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		1e-16
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		9e-16
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-14
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		7e-13
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		7e-13
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-10
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-10
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-10
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-10
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		5e-10
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-10
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		5e-10
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		6e-10
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		7e-10
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-09
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		4e-09
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		4e-09
4fmc_B	171	Espg-Rab1 Complex Length = 171		5e-09
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		5e-09
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		5e-09
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		5e-09
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		5e-09
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		5e-09
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		6e-09
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		6e-09
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		6e-09
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-09
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		8e-09
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		1e-08
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		1e-08
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		2e-08
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		2e-08
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		2e-08
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-08
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-08
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-08
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		2e-08
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-08
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-08
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-08
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-08
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-08
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-08
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-08
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-08
2efc_B	181	Ara7-GdpATVPS9A Length = 181		3e-08
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		3e-08
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		4e-08
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		5e-08
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		5e-08
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		5e-08
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		7e-08
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		7e-08
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-07
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-07
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-07
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		2e-07
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		3e-07
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		4e-07
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		4e-07
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		5e-07
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		6e-07
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		7e-07
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		8e-07
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-06
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-06
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-06
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		4e-06
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-06
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		4e-06
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		5e-06
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-05
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		1e-05
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		3e-05
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		9e-05
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		9e-05
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-04
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		3e-04
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		3e-04
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		3e-04
1byu_A	216	Canine Gdp-Ran Length = 216		3e-04
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-04
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		4e-04
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		4e-04
2bku_A	177	Kap95p:rangtp Complex Length = 177		4e-04
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		4e-04
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		4e-04
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		4e-04
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		4e-04
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		4e-04
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-04
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		5e-04
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		5e-04
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		5e-04
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		5e-04
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		6e-04
3icq_B	171	Karyopherin Nuclear State Length = 171		6e-04
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		6e-04

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 94.4 bits (233), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 72  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 130
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 131 VPTDEARAFAEKNGLSF 147

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 93  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 151
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 152 VPTDEARAFAEKNGLSF 168

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 84  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 142
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 143 VPTDEARAFAEKNGLSF 159

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 94.0 bits (232), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 58/77 (75%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL  
Sbjct: 93  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA 151
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 152 VPTDEARAFAEKNGLSF 168

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 44/62 (70%), Positives = 52/62 (83%), Gaps = 4/62 (6%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL--- 58
           I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL   
Sbjct: 70  ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAV 128
Query: 59  PT 60
           PT
Sbjct: 129 PT 130

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 92.0 bits (227), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 47/77 (61%), Positives = 57/77 (74%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVI ++GNK+DL+HL  
Sbjct: 69  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRA 127
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 128 VPTDEARAFAEKNGLSF 144

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 92.0 bits (227), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 47/77 (61%), Positives = 57/77 (74%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVI ++GNK+DL+HL  
Sbjct: 75  AITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRA 133
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  +  F   +GL F
Sbjct: 134 VPTDEARAFAEKNGLSF 150

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 89.7 bits (221), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 40/58 (68%), Positives = 51/58 (87%), Gaps = 1/58 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
            I SAYY RGA+GALLVYD+TK  +FEN+ +WLK+L D+ADSNIVI+++GNK+DLKHL
Sbjct: 72  AITSAYY-RGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHL 128

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 57/76 (75%), Gaps = 5/76 (6%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL---KHL 58
           I SAYY RGA+GALLV+D+TK  T+  V RWLK+L DHA++ IV+M++GNK+DL   + +
Sbjct: 75  ITSAYY-RGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREV 133
Query: 59  PTSMS-IFQSLSGLLF 73
           PT  + +F   +GLLF
Sbjct: 134 PTEEARMFAENNGLLF 149

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 57/76 (75%), Gaps = 5/76 (6%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL---KHL 58
           I SAYY RGA+GALLV+D+TK  T+  V RWLK+L DHA++ IV+M++GNK+DL   + +
Sbjct: 90  ITSAYY-RGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREV 148
Query: 59  PTSMS-IFQSLSGLLF 73
           PT  + +F   +GLLF
Sbjct: 149 PTEEARMFAENNGLLF 164

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 78.6 bits (192), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 39/77 (50%), Positives = 55/77 (71%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GAL+VYD++KS+++EN + WL +L ++AD N+ + +IGNK+DL HL  
Sbjct: 77  AITSAYY-RGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRA 135
Query: 59  -PTSMS-IFQSLSGLLF 73
            PT  S  F   + LLF
Sbjct: 136 VPTEESKTFAQENQLLF 152

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/63 (53%), Positives = 49/63 (77%), Gaps = 4/63 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-- 58
            I SAYY RGA+GAL+VYD++KS+++EN + WL +L ++AD N+ + +IGNK+DL HL  
Sbjct: 74  AITSAYY-RGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHLRA 132
Query: 59  -PT 60
            PT
Sbjct: 133 VPT 135

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 68.9 bits (167), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/55 (56%), Positives = 43/55 (78%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I  +YY RGA GALLVYD+T+  TF +++ WL+D   H+ SN+VIM+IGNK+DL+
Sbjct: 86  ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 68.9 bits (167), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 31/55 (56%), Positives = 44/55 (80%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I  +YY RGA GALLVYD+T+  TF +++ WL+D   H++SN+VIM+IGNK+DL+
Sbjct: 75  ITRSYY-RGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLE 128

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 48/69 (69%), Gaps = 2/69 (2%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-PT 60
           I  +YY R A GA+L YD+TK ++F +V  W++D+  +A SNIV ++IGNK+DL  L   
Sbjct: 94  ITQSYY-RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREV 152
Query: 61  SMSIFQSLS 69
           S++  QSL+
Sbjct: 153 SLAEAQSLA 161

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 40/55 (72%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G +LVYDVT   TF N+ +W K + +HA+    ++++GNK+D++
Sbjct: 72  ITTAYY-RGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 125

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 40/55 (72%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G +LVYDVT   TF N+ +W K + +HA+    ++++GNK+D++
Sbjct: 85  ITTAYY-RGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 138

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 40/55 (72%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G +LVYD+T   TF N+ +W K + +HA+    ++++GNK+D++
Sbjct: 68  ITTAYY-RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME 121

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 59.7 bits (143), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 41/55 (74%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I +AYY RGA+G +LVYD+T   +F+N+  W++++ +HA +++  M++GNK D+
Sbjct: 70  TITTAYY-RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 123

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 41/55 (74%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I +AYY RGA+G +LVYD+T   +F+N+  W++++ +HA +++  M++GNK D+
Sbjct: 72  TITTAYY-RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 125

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP- 59
            +  +YY RGA GAL+VYD+T+ +T+ ++S WL D  +  + N VI++IGNK DL+    
Sbjct: 79  AVTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRD 137
Query: 60  ---TSMSIFQSLSGLLF 73
                   F   +GLLF
Sbjct: 138 VTYEEAKQFAEENGLLF 154

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 59.3 bits (142), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 5/77 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP- 59
            +  +YY RGA GAL+VYD+T+ +T+ ++S WL D  +  + N VI++IGNK DL+    
Sbjct: 94  AVTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRD 152
Query: 60  ---TSMSIFQSLSGLLF 73
                   F   +GLLF
Sbjct: 153 VTYEEAKQFAEENGLLF 169

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA G +LVYDVT   TF N+ +W K + +HA+    ++++GNK+D +
Sbjct: 68  ITTAYY-RGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE 121

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA G +LVYD+T   TF N+ +W K + +HA+    ++++GNK+D +
Sbjct: 68  ITTAYY-RGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE 121

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 35/52 (67%)
Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  Y RG+  A++VYD+TK  +F  + +W+K+L +H   NIV+ + GNK DL
Sbjct: 89  APMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDL 140

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 70  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 123

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 70  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 123

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 64  ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 116

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 97  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 150

>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 = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 80  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 133

>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 = 55.8 bits (133), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 80  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 133

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 89  TITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 142

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T + TF     W+K+L   A  NIVI + GNK DL
Sbjct: 74  YYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL 122

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T + TF     W+K+L   A  NIVI + GNK DL
Sbjct: 72  YYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL 120

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 31/49 (63%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T + TF     W+K+L   A  NIVI + GNK DL
Sbjct: 74  YYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADL 122

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL
Sbjct: 63  ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 36/54 (66%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  +YY RGA GALLVYD+T   T+ +++ WL D    A  NIV+++ GNK DL
Sbjct: 90  VTRSYY-RGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDL 142

>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 = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I S+YY RGA G ++VYDVT   ++ NV +WL+++  +A  N+  +++GNK+DL
Sbjct: 74  ITSSYY-RGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDL 126

>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 = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 39/55 (70%), Gaps = 1/55 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
            I S+YY RGA G ++VYDVT   ++ NV +WL+++  +A  N+  +++GNK+DL
Sbjct: 73  TITSSYY-RGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDL 126

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  +YY RGA GALLVYD+T   T+  ++ WL D    A  NIVI++ GNK DL
Sbjct: 73  VTRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 125

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  +YY RGA GALLVYD+T   T+  ++ WL D    A  NIVI++ GNK DL
Sbjct: 76  VTRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 128

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           +  +YY RGA GALLVYD+T   T+  ++ WL D    A  NIVI++ GNK DL
Sbjct: 75  VTRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 127

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/62 (43%), Positives = 43/62 (69%), Gaps = 3/62 (4%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL--KHLP 59
           I S+YY RGA G ++VYDVT   +F+NV +W++++  +A  N+  +++GNK DL  K + 
Sbjct: 74  ITSSYY-RGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRVV 132
Query: 60  TS 61
           TS
Sbjct: 133 TS 134

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 34/57 (59%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS 63
           Y RG+  A++VYD+TK  TF  +  W+++L  H   +IV+ + GNK DL  +   M 
Sbjct: 74  YYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVME 130

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 32/49 (65%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RG+  A++VYD+TK  TF  +  W+++L  H   +IV+ + GNK DL
Sbjct: 75  YYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL 123

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 74  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 122

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 76  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 124

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 76  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 124

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL 123

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 4/71 (5%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL----KHLPTSM 62
           Y RGA  A++V+DVT   +FE   +W+++L    + N+V+ + GNK+DL    K      
Sbjct: 81  YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 140
Query: 63  SIFQSLSGLLF 73
             +   +GL F
Sbjct: 141 QTYAQENGLFF 151

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 23/49 (46%), Positives = 30/49 (61%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y RGA  A++VYD+T   TF     W+K+L   A  +IVI + GNK DL
Sbjct: 77  YYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADL 125

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I SAYY R A G +LVYD+TK  TF+++ +W+K +  +A  +  ++++GNK D +
Sbjct: 91  ITSAYY-RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE 144

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 38/56 (67%), Gaps = 1/56 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
            I S+YY RG+ G ++VYDVT   +F  V  WL+++  +A S ++ +++GNK DLK
Sbjct: 72  TITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 126

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I S+YY RG+ G ++VYDVT   +F  V  WL+++  +A S ++ +++GNK DLK
Sbjct: 86  ITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 139

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 38/56 (67%), Gaps = 1/56 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
            I S+YY RG+ G ++VYDVT   +F  V  WL+++  +A S ++ +++GNK DLK
Sbjct: 72  TITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK 126

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 37/54 (68%), Gaps = 1/54 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++G K DL
Sbjct: 73  ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDL 125

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 36/52 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           Y R +  A++VYD+T   +FEN ++W++D+ +    +++I ++GNKTDL  L
Sbjct: 70  YIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 121

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 32/51 (62%)
Query: 4   SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTD 54
           +  Y R A  AL+VYDVTK  +F     W+K+L + A  +I+I ++GNK D
Sbjct: 69  APXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKID 119

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           +  AYY R A   LL+YDVT   +F+N+  WL ++ ++A  ++ +M++GNK D  H
Sbjct: 76  VTHAYY-RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 130

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL
Sbjct: 75  YIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 123

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL
Sbjct: 82  YIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 130

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 37/57 (64%), Gaps = 3/57 (5%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRW---LKDLGDHADSNIVIMMIGNKTDLKHLPT 60
           Y  GA G LLVYD+T   +FEN+  W   +K + + +++  ++ ++GNK DL+H+ T
Sbjct: 76  YIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRT 132

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T + +F   S+W+ D+     S+++IM++GNKTDL
Sbjct: 83  YIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDL 131

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  S+W+ D+     S+++IM++GNKTDL
Sbjct: 71  YIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDL 119

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 23/53 (43%), Positives = 35/53 (66%), Gaps = 2/53 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTD 54
           I S YY RG  G ++VYDVT + +F NV RWL ++  + D ++  +++GNK D
Sbjct: 74  ITSTYY-RGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKND 124

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL
Sbjct: 70  YIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 118

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL
Sbjct: 75  YIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 123

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 34/49 (69%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           Y R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL
Sbjct: 85  YIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 133

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 38/64 (59%), Gaps = 4/64 (6%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH--- 57
            I +AYY RGA+G +L+YD+T   +F  V  W   +  ++  N  ++++GNK D++    
Sbjct: 87  TITTAYY-RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERV 145
Query: 58  LPTS 61
           +PT 
Sbjct: 146 VPTE 149

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 31/50 (62%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           Y R A G LL+YDVT   +F N+  W+  + D A   + IM++GNK D++
Sbjct: 97  YFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIR 146

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           Y R + GA+LVYD+T   +F+ V  W+K+L     + I + ++GNK DL+
Sbjct: 75  YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           Y R + GA+LVYD+T   +F+ V  W+K+L     + I + ++GNK DL+
Sbjct: 89  YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 138

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           Y R + GA+LVYD+T   +F+ V  W+K+L     + I + ++GNK DL+
Sbjct: 75  YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G +L+YD+T   +F  V  W   +  ++  N  ++++GNK D++
Sbjct: 70  ITTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME 123

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           I +AYY RGA+G LL+YD+    +F  V  W   +  ++  N  ++++GNK DL+
Sbjct: 87  ITTAYY-RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLE 140

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSN-IVIMMIGNKTDLKH 57
            +  +YY RGA G +LVYDVT+  TF  +  WL +L  +   N IV  ++GNK D ++
Sbjct: 79  TLTPSYY-RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN 135

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I  +YY R A   +L YD+T   +F  +  WL+++  +A + ++ +++GNK DL  
Sbjct: 91  ITQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAE 145

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
            I +AYY RGA G +L YD+T   +F  V  W   +  ++  N  ++++GNK D +
Sbjct: 72  TITTAYY-RGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXE 126

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 34/57 (59%), Gaps = 5/57 (8%)
Query: 5   AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSN----IVIMMIGNKTDLKH 57
           A+Y RGA   +LVYDVT +++FEN+  W  +   HA+ N       +++GNK D + 
Sbjct: 77  AFY-RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 132

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           V+   YY  GA GA+L +DVT   T +N++RW+K+      +   I++  NK D+K+
Sbjct: 76  VLKDVYY-IGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 37/56 (66%), Gaps = 2/56 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLK 56
           + +A++ R A+G LL++D+T   +F NV  W+  L  HA S N  I++ GNK+DL+
Sbjct: 86  LTTAFF-RDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE 140

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LEDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K
Sbjct: 68  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIK 120

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 80  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 132

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIK 127

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 80  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 132

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 77  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIK 129

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K
Sbjct: 71  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIK 123

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIK 127

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDL 55
           + +A++ R A+G LL++D+T   +F NV  W+  L  +A   N  I++IGNK DL
Sbjct: 86  LTTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADL 139

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH 57
           + + +Y RG+   LL + V  S +F+N+S W K+   +AD     +   +++GNKTD+K 
Sbjct: 76  LRTPFY-RGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKTDIKE 134
Query: 58  LPTSMSIFQS 67
              S    Q+
Sbjct: 135 RQVSTEEAQA 144

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK 56
           +   YY + A  A++ +DVT   T++NV  W +DL      NI I++ GNK D+K
Sbjct: 75  LRDGYYIQ-AQCAIIXFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIK 127

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDL 55
           + +A++ R A+G LL++D+T   +F NV  W+  L  +A   N  I++IGNK DL
Sbjct: 100 LTTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADL 153

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 11  ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           A  A++++DVT   T++NV  W +DL      NI I++ GNK D+K 
Sbjct: 85  AQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKE 130

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 11  ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K 
Sbjct: 78  AQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE 123

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 11  ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K 
Sbjct: 77  AQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE 122

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDL 55
           + +A++ R A+G LL++D+T   +F NV  W+  L  +A   N  I++IGNK DL
Sbjct: 86  LTTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADL 139

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	78
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	6e-28
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	9e-28
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-27
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-27
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	2e-27
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-27
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-27
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-27
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-27
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	4e-27
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	4e-27
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	5e-27
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	5e-27
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	6e-27
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-27
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-26
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-26
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-26
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-26
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-26
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-26
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-26
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	2e-26
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-26
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-26
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	3e-26
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	4e-26
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-25
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-25
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-25
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	5e-25
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	5e-25
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	6e-25
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-24
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-24
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-24
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-24
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-24
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	7e-24
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	7e-24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	9e-24
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-23
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-22
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-18
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	3e-18
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	5e-18
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	6e-18
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-17
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	7e-17
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-16
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	4e-16
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	6e-16
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-15
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-15
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-15
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-15
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-14
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-14
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	5e-14
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	6e-14
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	9e-14
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	9e-14
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-13
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-13
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	3e-13
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	5e-13
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-12
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-12
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	1e-10
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-08
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	5e-06
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	9e-06
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-05
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	5e-05
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	5e-05
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-04
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-04
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-04
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	3e-04
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	4e-04
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	6e-04
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	6e-04
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	8e-04

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 99.0 bits (247), Expect = 6e-28
 Identities = 32/57 (56%), Positives = 47/57 (82%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GAL+VYD++KS+++EN + WL +L ++AD N+ + +IGNK+DL HL
Sbjct: 78  ITSAYY-RGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHL 133

>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 = 97.7 bits (244), Expect = 9e-28
 Identities = 42/57 (73%), Positives = 50/57 (87%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL
Sbjct: 94  ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149

>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 = 97.4 bits (243), Expect = 1e-27
 Identities = 42/57 (73%), Positives = 50/57 (87%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+HL
Sbjct: 70  ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125

>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 = 96.4 bits (241), Expect = 2e-27
 Identities = 22/57 (38%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY RG+  A++VYD+TK  TF  +  W+++L  H   +IV+ + GNK DL  +
Sbjct: 71  LAPMYY-RGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126

>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 = 96.9 bits (242), Expect = 2e-27
 Identities = 27/57 (47%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  +YY RGA GALLVYD+T   T+  ++ WL D    A  NIVI++ GNK DL   
Sbjct: 75  VTRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 130

>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 = 96.5 bits (241), Expect = 2e-27
 Identities = 26/57 (45%), Positives = 40/57 (70%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  +YY RGA GAL+VYD+T+ +T+ ++S WL D  +  + N VI++IGNK DL+  
Sbjct: 80  VTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 135

>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 = 97.4 bits (243), Expect = 2e-27
 Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY  GA GA+L +DVT   T +N++RW+K+      +   I++  NK D+K+ 
Sbjct: 77  LKDVYY-IGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNR 132

>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 = 96.5 bits (241), Expect = 2e-27
 Identities = 21/57 (36%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY RGA  A++V+DVT   +FE   +W+++L    + N+V+ + GNK+DL   
Sbjct: 77  LAPMYY-RGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDA 132

>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 = 96.5 bits (241), Expect = 3e-27
 Identities = 34/57 (59%), Positives = 45/57 (78%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY RGA+GALLV+D+TK  T+  V RWLK+L DHA++ IV+M++GNK+DL   
Sbjct: 90  ITSAYY-RGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA 145

>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 = 96.2 bits (240), Expect = 4e-27
 Identities = 26/57 (45%), Positives = 36/57 (63%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  +YY RGA GALLVYD+T   T+ +++ WL D    A  NIV+++ GNK DL   
Sbjct: 90  VTRSYY-RGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE 145

>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 = 95.3 bits (238), Expect = 4e-27
 Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY RGA  A++VYD+T   +F     W+K+L   A  NIVI + GNK DL + 
Sbjct: 71  LAPMYY-RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126

>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 = 96.2 bits (240), Expect = 5e-27
 Identities = 24/57 (42%), Positives = 38/57 (66%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I S+YY RG+ G ++VYDVT   +F  V  WL+++  +A S ++ +++GNK DLK  
Sbjct: 73  ITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128

>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 = 95.7 bits (239), Expect = 5e-27
 Identities = 31/57 (54%), Positives = 43/57 (75%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I  +YY RGA GALLVYD+T+  TF +++ WL+D   H+ SN+VIM+IGNK+DL+  
Sbjct: 86  ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 141

>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 = 94.9 bits (237), Expect = 6e-27
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY R + GA+LVYD+T   +F+ V  W+K+L     + I + ++GNK DL+  
Sbjct: 71  LGPIYY-RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126

>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 = 95.4 bits (238), Expect = 7e-27
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +   YY RG+  A++VYD+TK  +F  + +W+K+L +H   NIV+ + GNK DL  +
Sbjct: 88  LAPMYY-RGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143

>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 = 95.4 bits (238), Expect = 1e-26
 Identities = 28/57 (49%), Positives = 41/57 (71%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I  +YY R A GA+L YD+TK ++F +V  W++D+  +A SNIV ++IGNK+DL  L
Sbjct: 94  ITQSYY-RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL 149

>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 = 95.5 bits (238), Expect = 1e-26
 Identities = 19/57 (33%), Positives = 36/57 (63%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  +Y  R +  A++VYD+T   +F+  ++W+ D+     S+++IM++GNKTDL   
Sbjct: 81  LIPSYI-RDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136

>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 = 95.0 bits (237), Expect = 1e-26
 Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 1/62 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS 61
           I  +Y+ R A G LL+YDVT   +F N+  W+  + D A   + IM++GNK D++    +
Sbjct: 93  IAKSYF-RKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAAT 151

Query: 62  MS 63
             
Sbjct: 152 EG 153

>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 = 95.0 bits (237), Expect = 1e-26
 Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I  +YY R A   +L YD+T   +F  +  WL+++  +A + ++ +++GNK DL   
Sbjct: 91  ITQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 146

>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 = 94.6 bits (236), Expect = 2e-26
 Identities = 23/57 (40%), Positives = 38/57 (66%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I SAYY R A G +LVYD+TK  TF+++ +W+K +  +A  +  ++++GNK D +  
Sbjct: 91  ITSAYY-RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 146

>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 = 94.2 bits (235), Expect = 2e-26
 Identities = 22/57 (38%), Positives = 36/57 (63%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  AYY R A   LL+YDVT   +F+N+  WL ++ ++A  ++ +M++GNK D  H 
Sbjct: 76  VTHAYY-RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHE 131

>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 = 94.2 bits (235), Expect = 2e-26
 Identities = 20/57 (35%), Positives = 36/57 (63%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           +  +Y  R +  A++VYD+T + +F   S+W+ D+     S+++IM++GNKTDL   
Sbjct: 79  LIPSYI-RDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134

>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 = 94.6 bits (236), Expect = 2e-26
 Identities = 20/57 (35%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I +AYY RGA+G +L+YD+T   +F  V  W   +  ++  N  ++++GNK D++  
Sbjct: 73  ITTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 128

>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 = 93.8 bits (234), Expect = 2e-26
 Identities = 23/57 (40%), Positives = 41/57 (71%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I +AYY RGA+G +LVYD+T   +F+N+  W++++ +HA +++  M++GNK D+   
Sbjct: 73  ITTAYY-RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128

>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 = 93.8 bits (234), Expect = 3e-26
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I +AYY RGA+G LL+YD+    +F  V  W   +  ++  N  ++++GNK DL+  
Sbjct: 87  ITTAYY-RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE 142

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 93.8 bits (234), Expect = 3e-26
 Identities = 25/57 (43%), Positives = 38/57 (66%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL   
Sbjct: 81  ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136

>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 = 93.9 bits (234), Expect = 4e-26
 Identities = 25/57 (43%), Positives = 38/57 (66%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I S+YY RGA G ++VYDVT   +F NV +WL+++  +A  N+  +++GNK DL   
Sbjct: 98  ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153

>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 = 92.3 bits (230), Expect = 1e-25
 Identities = 20/57 (35%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I +AYY RGA+G +L+YD+T   +F  V  W   +  ++  N  ++++GNK D++  
Sbjct: 88  ITTAYY-RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE 143

>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 = 91.1 bits (227), Expect = 2e-25
 Identities = 24/54 (44%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I +AYY RGA+G +LVYD+T   TF N+ +W K + +HA+    ++++GNK+D+
Sbjct: 68  ITTAYY-RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

>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 = 91.6 bits (228), Expect = 4e-25
 Identities = 25/54 (46%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL 55
           I +AYY RGA+G +LVYDVT   TF N+ +W K + +HA+    ++++GNK+D+
Sbjct: 85  ITTAYY-RGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 137

>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 = 90.3 bits (225), Expect = 5e-25
 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 4/60 (6%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWL---KDLGDHADSNIVIMMIGNKTDLKHL 58
           +   Y   GA G LLVYD+T   +FEN+  W    K + + +++  ++ ++GNK DL+H+
Sbjct: 72  MLDKYI-YGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM 130

>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 = 90.8 bits (226), Expect = 5e-25
 Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 2/58 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKHL 58
           + +A++ R A+G LL++D+T   +F NV  W+  L  HA S N  I++ GNK+DL+  
Sbjct: 86  LTTAFF-RDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQ 142

>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 = 91.2 bits (227), Expect = 6e-25
 Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 2/58 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKHL 58
           + +A++ R A+G LL++D+T   +F NV  W+  L  +A   N  I++IGNK DL   
Sbjct: 100 LTTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ 156

>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 = 90.0 bits (224), Expect = 1e-24
 Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSN-IVIMMIGNKTDLKHL 58
           +   YY R     + VYD+T   +F ++  W+++   H  +N I  +++GNK DL+  
Sbjct: 86  MVQHYY-RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA 142

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 90.0 bits (224), Expect = 1e-24
 Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 4/60 (6%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL---GDHADSNIVIMMIGNKTDLKHL 58
             S Y+  G   A+LV+DV+   +FE+   W + L       +  +  +++ NKTDL   
Sbjct: 89  QISQYW-NGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQ 147

>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 = 88.7 bits (221), Expect = 2e-24
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I  AYY RGA   +LV+  T   +FE +S W + +      +I   ++ NK DL   
Sbjct: 70  ITKAYY-RGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDD 124

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 89.2 bits (222), Expect = 2e-24
 Identities = 23/57 (40%), Positives = 35/57 (61%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL 58
           I S YY RG  G ++VYDVT + +F NV RWL ++  + D ++  +++GNK D    
Sbjct: 74  ITSTYY-RGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPER 128

>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 = 90.1 bits (224), Expect = 2e-24
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           +   YY   A  A++++DVT   T++NV  W +DL    + NI I++ GNK D+K 
Sbjct: 80  LRDGYY-IQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD 133

>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 = 87.6 bits (218), Expect = 7e-24
 Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 5/60 (8%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH 57
           + + +Y RG+   LL + V  S +F+N+S W K+   +AD     +   +++GNK D+  
Sbjct: 72  LRTPFY-RGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE 130

>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 = 88.1 bits (219), Expect = 7e-24
 Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 5/60 (8%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH 57
           +  A+Y RGA   +LV+DVT   TF+ +  W  +    A      N   +++GNK DL++
Sbjct: 73  LGVAFY-RGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN 131

>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 = 87.7 bits (218), Expect = 9e-24
 Identities = 25/55 (45%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSN-IVIMMIGNKTDL 55
           +  +YY RGA G +LVYDVT+  TF  +  WL +L  +   N IV M++GNK D 
Sbjct: 80  LTPSYY-RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK 133

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 87.6 bits (217), Expect = 1e-23
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 3/56 (5%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I   YY RGA  A++V+D++ S T +    W+  L     SN +I+++ NK D   
Sbjct: 109 IVPLYY-RGATCAIVVFDISNSNTLDRAKTWVNQL--KISSNYIIILVANKIDKNK 161

>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 = 84.6 bits (210), Expect = 1e-22
 Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 5/61 (8%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH 57
           +  A+Y RGA   +LVYDVT +++FEN+  W  +   HA+         +++GNK D + 
Sbjct: 74  LGVAFY-RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 132

Query: 58  L 58
            
Sbjct: 133 S 133

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 72.9 bits (180), Expect = 2e-18
 Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
            +      +     L+V+ VT   +F  V   L  L       ++ ++++GNK+DL  
Sbjct: 67  WLQDHCL-QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLAR 123

>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 = 73.1 bits (180), Expect = 3e-18
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           ++     +     L+VY +T   +FE  S     L     + +I I+++GNK+DL  
Sbjct: 73  LHDHCM-QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR 128

>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 = 72.6 bits (179), Expect = 5e-18
 Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 1   VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
            +      +     L+V+ VT   +F  V   L  L       ++ ++++GNK+DL  
Sbjct: 88  WLRDHCL-QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLAR 144

>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 = 72.7 bits (179), Expect = 6e-18
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           ++     +     L+VY +T   +FE  S     L     + +I I+++GNK+DL  
Sbjct: 104 LHDHCM-QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR 159

>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 = 70.1 bits (172), Expect = 4e-17
 Identities = 10/57 (17%), Positives = 24/57 (42%), Gaps = 3/57 (5%)

Query: 2   INSAYYNRGALGALLVYDVTK-STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
            +  +        L VYD++K     + +  WL ++   A  +  ++++G   D+  
Sbjct: 72  THPHFM-TQRALYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVSD 126

>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 = 69.5 bits (171), Expect = 7e-17
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
              +   +G    ++VY +    +FE+ S     L   H   ++ I+++GNK DL  
Sbjct: 70  SQESCL-QGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLAR 125

>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 = 68.7 bits (169), Expect = 1e-16
 Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           +            ++VY VT   +FE  S     L     + ++ I+++GNK+DL  
Sbjct: 65  LPGHCM-AMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 120

>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 = 67.5 bits (166), Expect = 3e-16
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           I   Y+ R   G L V+ +T+  +F   + + + +     D N+  +++GNK+DL+ 
Sbjct: 68  IRDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123

>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 = 67.6 bits (166), Expect = 4e-16
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           I   Y+ R   G L V+ +T+  +F   + + + +     D N+  +++GNK+DL+ 
Sbjct: 82  IRDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 137

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 67.6 bits (166), Expect = 6e-16
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           +  ++   G  G +LVY VT   +F+ +    + L + H  + + ++++GNK DL  
Sbjct: 88  LPYSFI-IGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSP 143

>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 = 66.5 bits (163), Expect = 2e-15
 Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           I   Y+ R   G L V+ +T+  +F   + + + +     D N+  +++GNK+DL+ 
Sbjct: 78  IRDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 133

>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 = 65.6 bits (161), Expect = 2e-15
 Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           +   Y  R   G LLV+ +    +F  V +    +       +  ++++GNK DL+ 
Sbjct: 73  MREQYM-RAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLES 128

>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 = 65.2 bits (159), Expect = 3e-15
 Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS 61
           +   YY R A  AL+VYDVTK  +F     W+K+L + A  +I+I ++GNK D       
Sbjct: 68  LAPXYY-RNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGE 126

Query: 62  MSI 64
             +
Sbjct: 127 RKV 129

>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 = 64.5 bits (158), Expect = 7e-15
 Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           +   Y  R   G L+VY VT   +FE+V R+ + +    D  +  ++++ NK DL H
Sbjct: 82  MREQYM-RTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 137

>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 = 63.7 bits (156), Expect = 1e-14
 Identities = 14/57 (24%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           +   Y  R   G L V+ +  + +FE++ ++ + +    DS ++ ++++GNK+DL  
Sbjct: 67  MRDQYM-RTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA 122

>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 = 63.7 bits (156), Expect = 1e-14
 Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
               Y      G +LVY VT   +FE +      L D      I IM++GNK DL  
Sbjct: 70  FPQTYS-IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 125

>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 = 61.7 bits (151), Expect = 5e-14
 Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           +   Y  +   G +LVY +    +F+++      +        + ++++GNK DL+ 
Sbjct: 67  MRDLYI-KNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

>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 = 62.2 bits (152), Expect = 6e-14
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
               +  R   G +LVYD+T   +FE V      L +     N+ ++++GNK DL H
Sbjct: 91  QREGHM-RWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH 146

>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 = 61.5 bits (150), Expect = 9e-14
 Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDL 55
           +   Y  R   G L V+ +  S +F +++ + + +    DS ++ ++++GNK DL
Sbjct: 85  MRDQYM-RTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL 138

>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 = 61.0 bits (149), Expect = 9e-14
 Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS--NIVIMMIGNKTDLKH 57
           +            +LVY +T   + E +    + + +      +I IM++GNK D   
Sbjct: 67  MQRLSI-SKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 123

>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 = 60.7 bits (148), Expect = 2e-13
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKH 57
           Y   A   L+VY V    +F++ S +L+ L  HA     +I  +++GNK D+  
Sbjct: 88  YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ 141

>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 = 60.7 bits (148), Expect = 2e-13
 Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD--HADSNIVIMMIGNKTDLKH 57
           +            +LV+ VT   + E +    K +     +  +I +M++GNK D   
Sbjct: 72  MQRLSI-SKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ 128

>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 = 60.3 bits (147), Expect = 3e-13
 Identities = 14/55 (25%), Positives = 30/55 (54%), Gaps = 2/55 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDL 55
           +   Y  R   G L V+ +  + +FE++  + + +    DS ++ ++++GNK DL
Sbjct: 68  MRDQYM-RTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL 121

>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 = 59.0 bits (144), Expect = 5e-13
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKH 57
           +   Y  +   G  LVY +T  +TF ++    + +       ++ ++++GNK DL+ 
Sbjct: 67  MRDLYM-KNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

>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 = 58.3 bits (142), Expect = 2e-12
 Identities = 5/51 (9%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADS-NIVIMMIGNKTDL 55
           +        + V+ +    +F+ V  +   L    ++  + ++++G +  +
Sbjct: 82  FA-AWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAI 131

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 58.5 bits (141), Expect = 5e-12
 Identities = 9/56 (16%), Positives = 21/56 (37%), Gaps = 5/56 (8%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
            +  +    +   +L+ D     T  N   WL+ +  +      ++++ NK D   
Sbjct: 114 SHQFFM-TRSSVYMLLLDSR---TDSNKHYWLRHIEKYGG-KSPVIVVMNKIDENP 164

>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 = 53.0 bits (128), Expect = 1e-10
 Identities = 7/57 (12%), Positives = 18/57 (31%), Gaps = 6/57 (10%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDL-----GDHADSNIVIMMIGNKTDLKH 57
           +    A   + V+ +    +F+ VSR    L            + ++   ++     
Sbjct: 69  FS-GWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASS 124

>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 = 47.7 bits (113), Expect = 2e-08
 Identities = 10/48 (20%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 13  GALLVYDVTK--STTFENVSRWLKDLGDHADS-NIVIMMIGNKTDLKH 57
           G LL  DV++  +  F++  +++ +L +        I+++  K D   
Sbjct: 165 GFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGV 212

>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 = 40.8 bits (96), Expect = 5e-06
 Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 3/51 (5%)

Query: 6   YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
            Y RGA   +L + +    ++ENV  +W+ +L  +A   + I+++G K DL
Sbjct: 76  SY-RGADVFILAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDL 124

>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 = 40.4 bits (95), Expect = 9e-06
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 3/57 (5%)

Query: 6   YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS 61
            Y RGA   +L + +    ++ENV  +W+ +L   A  N+ I+++G K DL+     
Sbjct: 77  SY-RGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGY 131

>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 = 39.2 bits (92), Expect = 2e-05
 Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 3/51 (5%)

Query: 6   YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
            Y   +   LL + V   T+F+N+ ++W  ++  + D     +++G K DL
Sbjct: 91  SY-ADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDL 139

>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 = 38.2 bits (89), Expect = 5e-05
 Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 6   YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
            Y       L+ + +    + EN+  +W  ++      N+ I+++GNK DL
Sbjct: 93  SY-PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDL 141

>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 = 38.2 bits (89), Expect = 5e-05
 Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           LL +DVT   +F+N+ +RW  ++       + I+++G KTDL
Sbjct: 110 LLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDL 150

>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 = 37.4 bits (87), Expect = 1e-04
 Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 3/53 (5%)

Query: 6   YYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH 57
            Y       L+ + V    + EN+  +W+ ++      N+ I+++ NK DL+ 
Sbjct: 93  SY-PDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRS 143

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 37.0 bits (86), Expect = 1e-04
 Identities = 10/54 (18%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 7   YNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLP 59
               +   L+ +D+++  T ++V  +W  ++ +    N  ++++G K+DL+   
Sbjct: 75  SYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDV 127

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 37.0 bits (86), Expect = 1e-04
 Identities = 12/42 (28%), Positives = 25/42 (59%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           LL + V   ++F+NV  +W+ ++  H      I+++G ++DL
Sbjct: 96  LLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDL 136

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 36.3 bits (84), Expect = 2e-04
 Identities = 10/42 (23%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           L+ +D+++  T ++V  +W  ++ +    N  ++++G K+DL
Sbjct: 104 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDL 144

>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 = 36.3 bits (84), Expect = 3e-04
 Identities = 13/42 (30%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           L+ + +    +FENV ++W  ++  H   N  I+++G K DL
Sbjct: 106 LICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDL 146

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 35.6 bits (82), Expect = 4e-04
 Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           L+ + V    +F+NV   W+ +L ++A  N+  ++IG + DL
Sbjct: 94  LICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDL 134

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 35.3 bits (81), Expect = 6e-04
 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDL 55
           L+ + +    +F +V ++W  ++  H   N  I+++G K DL
Sbjct: 231 LICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDL 271

>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 = 35.1 bits (81), Expect = 6e-04
 Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 2/46 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLP 59
           L+ + +    +FENV ++W  ++  H   N  I+++G K DL+   
Sbjct: 81  LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDK 125

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 34.9 bits (80), Expect = 8e-04
 Identities = 12/46 (26%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 15  LLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLP 59
           LL +D+++  T ++   +W  ++ D+   +  +++IG KTDL+   
Sbjct: 103 LLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTDL 147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	78
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.82
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.67
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.64
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.62
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.62
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.61
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.6
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.59
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.59
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.59
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.59
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.58
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.58
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.58
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.58
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.57
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.57
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.57
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.57
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.57
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.57
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.56
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.56
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.56
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.56
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.56
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.56
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.56
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.56
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.55
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.55
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.55
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.55
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.55
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.54
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.53
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.53
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.53
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.53
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.53
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.52
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.52
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.52
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.52
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.51
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.5
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.5
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.5
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.5
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.5
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.49
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.49
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.49
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.49
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.48
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.48
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.48
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.48
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.48
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.48
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.47
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.47
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.47
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.47
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.47
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.47
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.47
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.46
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.46
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.46
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.46
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.45
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.45
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.45
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.45
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.45
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.45
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.45
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.45
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.45
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.44
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.44
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.44
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.44
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.43
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.43
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.42
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.42
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.42
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.41
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.41
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.4
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.4
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.4
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.39
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.38
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.38
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.36
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.35
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.34
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.34
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.34
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.32
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.32
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.3
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.29
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.29
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.26
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.23
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.23
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.2
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.2
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.18
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.16
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.13
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.06
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.01
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.97
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.89
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.82
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.81
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.79
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.78
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.76
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.75
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.68
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.65
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.6
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.58
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.58
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.57
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.53
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.45
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.41
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.38
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.37
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.37
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.33
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.32
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.29
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.28
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.27
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.27
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.24
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.23
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.23
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.22
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.22
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.21
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.17
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.17
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.16
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.16
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.11
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.1
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.08
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.04
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.03
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.02
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.98
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	97.94
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	97.88
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	97.87
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	97.85
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	97.83
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.83
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.83
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.82
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	97.82
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.81
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.81
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.78
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	97.74
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.73
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.72
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	97.7
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.68
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.68
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.67
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.66
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.64
1wb1_A	482	Translation elongation factor SELB; selenocysteine	97.63
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.63
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.61
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.6
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.59
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.53
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.53
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.38
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.31
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.25
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.11
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.04
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	96.93
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.87
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.8
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	96.77
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.61
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	96.47
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.56
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.4
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.05
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.95
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	94.61
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.38
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	93.73
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.92
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	92.61
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	90.01
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	89.84
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	86.12
2hf9_A	226	Probable hydrogenase nickel incorporation protein	83.02
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	82.89
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	80.86

>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=99.82  E-value=8.7e-21  Score=115.35  Aligned_cols=70  Identities=27%  Similarity=0.524  Sum_probs=61.1

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGL   71 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~   71 (78)
                      ++++.|| ++++++++|||+++++||+++..|+..+.+..++++|++|||||+||.+.|.|+...++..+.
T Consensus        77 ~l~~~~~-~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~  146 (216)
T 4dkx_A           77 SLIPSYI-RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK  146 (216)
T ss_dssp             GGHHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHH
T ss_pred             hHHHHHh-ccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHH
Confidence            3577899 999999999999999999999999999988877889999999999999889888655544333

>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=99.67  E-value=6.6e-17  Score=97.80  Aligned_cols=63  Identities=24%  Similarity=0.329  Sum_probs=53.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|| ++++++++|||+++++||+.+..|...+.+.. .+++|++|||||+||.+.+.+....
T Consensus       104 l~~~~~-~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e  167 (211)
T 2g3y_A          104 LHDHCM-QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSE  167 (211)
T ss_dssp             HHHCCC-CCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHH
T ss_pred             HHHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHH
Confidence            346788 99999999999999999999999998887643 3579999999999998777776443

>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=99.64  E-value=6.1e-16  Score=90.09  Aligned_cols=61  Identities=38%  Similarity=0.857  Sum_probs=51.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.....++.|+++||||+|+.+.+.++.
T Consensus        73 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~  133 (183)
T 2fu5_C           73 ITTAYY-RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSK  133 (183)
T ss_dssp             -CCTTT-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCH
T ss_pred             hHHHHH-hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCH
Confidence            456788 9999999999999999999999999999887667899999999999987766653

>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=99.62  E-value=6.6e-16  Score=91.51  Aligned_cols=62  Identities=24%  Similarity=0.361  Sum_probs=52.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|| ++++++++|||+++++||+++..|...+.+.. .++.|+++||||+|+.+.+.+...
T Consensus        73 ~~~~~~-~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~  135 (192)
T 2cjw_A           73 LHDHCM-QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVS  135 (192)
T ss_dssp             TGGGHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHH
T ss_pred             HHHhhc-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHH
Confidence            567788 99999999999999999999999998887653 357999999999999766666543

>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=99.62  E-value=4.5e-16  Score=92.41  Aligned_cols=61  Identities=21%  Similarity=0.340  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ ++++++++|||+++++||+.+..|+.++..... .++|+++||||+|+.+.+.++.
T Consensus        89 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~  150 (195)
T 3cbq_A           89 LRDHCL-QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSL  150 (195)
T ss_dssp             HHHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCH
T ss_pred             hHHHhh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCH
Confidence            345678 999999999999999999999999999877653 5799999999999987777653

>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=99.61  E-value=1.5e-15  Score=87.01  Aligned_cols=64  Identities=22%  Similarity=0.264  Sum_probs=47.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++++|||+++++||+.+..|+..+.+.. .++.|+++||||+|+.+.+.++....
T Consensus        65 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  129 (166)
T 3q72_A           65 LPGHCM-AMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEG  129 (166)
T ss_dssp             ---------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHH
T ss_pred             hhhhhh-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHH
Confidence            456788 99999999999999999999999999987654 36899999999999988777764433

>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=99.60  E-value=2.8e-15  Score=87.11  Aligned_cols=64  Identities=30%  Similarity=0.310  Sum_probs=53.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+.++.+... .+.|+++||||+|+.+.+.+.....
T Consensus        70 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  134 (181)
T 3t5g_A           70 FPQTYS-IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEG  134 (181)
T ss_dssp             CCGGGT-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHH
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHH
Confidence            467888 999999999999999999999999999876653 5799999999999987777764433

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.59  E-value=2.7e-15  Score=88.06  Aligned_cols=61  Identities=41%  Similarity=0.745  Sum_probs=54.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+......+.|+++||||+|+.+.+.+..
T Consensus        81 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~  141 (196)
T 3tkl_A           81 ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDY  141 (196)
T ss_dssp             THHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCH
T ss_pred             hHHHHH-hhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCH
Confidence            346788 9999999999999999999999999999888767899999999999987776653

>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=99.59  E-value=1.3e-15  Score=89.67  Aligned_cols=61  Identities=31%  Similarity=0.642  Sum_probs=53.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+.....++.|+++||||+|+.+.+.+...
T Consensus        89 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~  149 (191)
T 3dz8_A           89 TTAYY-RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTE  149 (191)
T ss_dssp             HHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             HHHHH-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHH
Confidence            45688 99999999999999999999999999998877678999999999999877666543

>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=99.59  E-value=1.2e-15  Score=90.73  Aligned_cols=59  Identities=46%  Similarity=0.802  Sum_probs=52.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++|+|||+++++||+.+..|+..+.+....+.|+++||||+|+.+.+.++
T Consensus        95 ~~~~~-~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~  153 (201)
T 2hup_A           95 TQSYY-RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVS  153 (201)
T ss_dssp             HHHHH-TTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC
T ss_pred             HHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccC
Confidence            45788 999999999999999999999999999988776789999999999998766655

>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=99.59  E-value=1.8e-15  Score=90.93  Aligned_cols=54  Identities=24%  Similarity=0.574  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHH-HHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFEN-VSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++|+|||+++++||++ +..|+..+.+.. +++|+++||||+|+.+
T Consensus        91 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           91 VRPLCY-SDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRT  145 (214)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGG
T ss_pred             HHHHHc-CCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcc
Confidence            567889 99999999999999999999 699999998876 7899999999999975

>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=99.58  E-value=1.5e-15  Score=87.19  Aligned_cols=63  Identities=21%  Similarity=0.296  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+.++....+ ++.|+++||||+|+.+.+.++...
T Consensus        68 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~  131 (169)
T 3q85_A           68 LQDHCL-QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEE  131 (169)
T ss_dssp             --CHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHH
T ss_pred             hhhhhh-ccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHH
Confidence            456678 999999999999999999999999999987764 589999999999998777666443

>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=99.58  E-value=9.6e-15  Score=86.64  Aligned_cols=61  Identities=39%  Similarity=0.744  Sum_probs=54.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.....++.|+++||||+|+.+.+.+..
T Consensus        73 ~~~~~~-~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~  133 (206)
T 2bcg_Y           73 ITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEY  133 (206)
T ss_dssp             CCGGGG-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCH
T ss_pred             HHHHhc-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCH
Confidence            467789 9999999999999999999999999999887767899999999999987766653

>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=99.58  E-value=3e-15  Score=88.07  Aligned_cols=61  Identities=51%  Similarity=0.904  Sum_probs=53.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.....++.|+++||||+|+.+.+.+..
T Consensus        86 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~  146 (191)
T 2a5j_A           86 ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKR  146 (191)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCH
T ss_pred             hHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCH
Confidence            456788 9999999999999999999999999999887667899999999999977666653

>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=99.58  E-value=3.3e-15  Score=86.11  Aligned_cols=61  Identities=21%  Similarity=0.375  Sum_probs=50.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ++.|+ ++++++++|||+++++||+.+..|...+.+.. .++.|+++||||+|+.+.+.++..
T Consensus        71 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~  132 (175)
T 2nzj_A           71 QESCL-QGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVE  132 (175)
T ss_dssp             HHHTT-TSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHH
T ss_pred             HHhhc-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHH
Confidence            45678 99999999999999999999999999887653 357999999999999877776543

>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=99.57  E-value=2e-15  Score=90.17  Aligned_cols=60  Identities=28%  Similarity=0.619  Sum_probs=53.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||+++++||+.+..|+..+......+.|+++||||+|+.+.+.+..
T Consensus        92 ~~~~~-~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~  151 (201)
T 2ew1_A           92 TQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQ  151 (201)
T ss_dssp             HGGGS-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCH
T ss_pred             HHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCH
Confidence            46788 9999999999999999999999999999887767899999999999977666653

>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=99.57  E-value=4.9e-15  Score=84.91  Aligned_cols=61  Identities=38%  Similarity=0.793  Sum_probs=53.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++.+++.+..|+..+.....+..|+++||||+|+.+.+++..
T Consensus        71 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~  131 (170)
T 1z0j_A           71 LAPMYY-RGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVME  131 (170)
T ss_dssp             GTHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCH
T ss_pred             ccHhhC-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCH
Confidence            346778 9999999999999999999999999999887668899999999999987666653

>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=99.57  E-value=7.8e-15  Score=85.01  Aligned_cols=60  Identities=35%  Similarity=0.744  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++.+|+.+..|+..+.....++.|+++|+||+|+.+.+.+.
T Consensus        77 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~  136 (181)
T 2efe_B           77 LAPMYY-RGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVT  136 (181)
T ss_dssp             GTHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSC
T ss_pred             hhHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCC
Confidence            346788 999999999999999999999999999988766789999999999998766654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.57  E-value=8.7e-15  Score=84.58  Aligned_cols=61  Identities=36%  Similarity=0.724  Sum_probs=53.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.... ++.|+++||||+|+.+.+.+...
T Consensus        74 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~  134 (181)
T 3tw8_B           74 ITSTYY-RGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETE  134 (181)
T ss_dssp             CCGGGG-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHH
T ss_pred             hHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHH
Confidence            456788 99999999999999999999999999998776 68999999999999876666533

>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=99.57  E-value=6.9e-15  Score=86.26  Aligned_cols=60  Identities=35%  Similarity=0.679  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.....++.|+++||||+|+.+.+.+.
T Consensus        87 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~  146 (189)
T 2gf9_A           87 ITTAYY-RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVP  146 (189)
T ss_dssp             SGGGGG-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC
T ss_pred             hHHHhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCC
Confidence            456788 999999999999999999999999999988766789999999999998766654

>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=99.57  E-value=2.6e-15  Score=87.38  Aligned_cols=63  Identities=29%  Similarity=0.445  Sum_probs=53.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.+.+....
T Consensus        82 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~  145 (183)
T 3kkq_A           82 MREQYM-RTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQ  145 (183)
T ss_dssp             SHHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHH
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHH
Confidence            456788 99999999999999999999999999986643 4679999999999998877776443

>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=99.56  E-value=7.3e-15  Score=85.06  Aligned_cols=61  Identities=36%  Similarity=0.727  Sum_probs=52.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++.+|+.+..|+..+......+.|+++|+||+|+.+.+.+..
T Consensus        76 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~  136 (180)
T 2g6b_A           76 VTHAYY-RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKR  136 (180)
T ss_dssp             ---CCG-GGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCH
T ss_pred             HHHHHc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCH
Confidence            456788 9999999999999999999999999999887767899999999999987666553

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.56  E-value=4e-15  Score=89.60  Aligned_cols=61  Identities=52%  Similarity=0.977  Sum_probs=51.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++|+|||++++.+|+.+..|+..+......+.|+++||||+|+.+.+.++.
T Consensus        78 ~~~~~~-~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~  138 (223)
T 3cpj_B           78 ITSAYY-RGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPT  138 (223)
T ss_dssp             CCGGGT-TTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCH
T ss_pred             hHHHHh-ccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCH
Confidence            567889 9999999999999999999999999999887667899999999999987666653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.56  E-value=6.8e-15  Score=86.86  Aligned_cols=59  Identities=29%  Similarity=0.479  Sum_probs=47.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC---CCCeEEEEeeCCCCCC-CCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD---SNIVIMMIGNKTDLKH-LPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~lvgnK~Dl~~-~~~v~   62 (78)
                      +..|+ +++|++++|||++++.||+.+..|+..+.....   .+.|+++||||+|+.+ .+.++
T Consensus        90 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~  152 (208)
T 2yc2_C           90 ISQYW-NGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVR  152 (208)
T ss_dssp             HSTTC-CCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCC
T ss_pred             HHHHH-hhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCC
Confidence            46788 999999999999999999999999999988775   5899999999999987 66665

>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=99.56  E-value=3.9e-15  Score=85.18  Aligned_cols=59  Identities=41%  Similarity=0.724  Sum_probs=52.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+.....+++|+++||||+|+.+.+.++
T Consensus        72 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~  130 (170)
T 1r2q_A           72 APMYY-RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD  130 (170)
T ss_dssp             HHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSC
T ss_pred             hHHhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccC
Confidence            45678 999999999999999999999999999987766789999999999997666554

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.56  E-value=7.6e-15  Score=86.99  Aligned_cols=63  Identities=22%  Similarity=0.422  Sum_probs=52.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+.. ..++|+++||||+|+.+.+.+....
T Consensus        88 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~  151 (201)
T 3oes_A           88 LPYSFI-IGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVE  151 (201)
T ss_dssp             CCGGGT-TTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHH
T ss_pred             HHHHHH-hcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHH
Confidence            467888 99999999999999999999999999997764 3579999999999998777766443

>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=99.56  E-value=5.2e-15  Score=86.80  Aligned_cols=61  Identities=26%  Similarity=0.591  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+.++.+.. ..+.|+++||||+|+.+.+.+..
T Consensus        86 ~~~~~~-~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~  147 (189)
T 1z06_A           86 MVQHYY-RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPT  147 (189)
T ss_dssp             THHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCH
T ss_pred             hhHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCH
Confidence            456788 99999999999999999999999999998775 46799999999999977666653

>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=99.56  E-value=2.1e-15  Score=88.74  Aligned_cols=59  Identities=29%  Similarity=0.453  Sum_probs=51.3

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCCCCCchH
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ..|+ ++++++++|||+++++||+.+..|+..+.+..   .++.|+++||||+|+.+.+.++.
T Consensus        86 ~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~  147 (187)
T 3c5c_A           86 ERYL-NWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTK  147 (187)
T ss_dssp             HHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCH
T ss_pred             HHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCH
Confidence            4578 99999999999999999999999999997764   26799999999999987776653

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.56  E-value=1.7e-15  Score=89.74  Aligned_cols=60  Identities=42%  Similarity=0.768  Sum_probs=47.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+......+.|+++||||+|+.+.+.+.
T Consensus        98 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~  157 (199)
T 3l0i_B           98 ITSSYY-RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD  157 (199)
T ss_dssp             CSCC---CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCC
T ss_pred             HHHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCC
Confidence            456788 999999999999999999999999999988776789999999999997665443

>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=99.55  E-value=9.3e-15  Score=86.43  Aligned_cols=59  Identities=32%  Similarity=0.673  Sum_probs=52.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+......+.|+++||||+|+.+.+.+.
T Consensus        74 ~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~  132 (203)
T 1zbd_A           74 TTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS  132 (203)
T ss_dssp             HHTTG-GGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSC
T ss_pred             HHHhh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccC
Confidence            45788 999999999999999999999999999987766789999999999998776665

>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=99.55  E-value=4e-15  Score=85.39  Aligned_cols=60  Identities=35%  Similarity=0.708  Sum_probs=51.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.....++.|+++|+||+|+.+.+.++
T Consensus        71 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~  130 (170)
T 1z08_A           71 LGPIYY-RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS  130 (170)
T ss_dssp             --CCSS-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSC
T ss_pred             hHHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccC
Confidence            456788 999999999999999999999999999877665679999999999997766655

>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=99.55  E-value=1.5e-14  Score=86.47  Aligned_cols=64  Identities=31%  Similarity=0.563  Sum_probs=52.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++..|+ +++|++++|||++++.||+.+..|+..+......+.|+++||||+|+.+.+.+.....
T Consensus        77 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  140 (218)
T 4djt_A           77 LKDVYY-IGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLV  140 (218)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHH
T ss_pred             HHHHHh-hcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHH
Confidence            456788 9999999999999999999999999999887767799999999999987766665444

>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=99.55  E-value=5.5e-15  Score=87.74  Aligned_cols=60  Identities=43%  Similarity=0.776  Sum_probs=53.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++|+|||++++++|+.+..|+..+.....++.|+++||||+|+.+.+.++
T Consensus        90 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~  149 (200)
T 2o52_A           90 VTRSYY-RGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVT  149 (200)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSC
T ss_pred             HHHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccC
Confidence            456788 999999999999999999999999999987766789999999999997666665

>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=99.55  E-value=6.9e-15  Score=86.64  Aligned_cols=60  Identities=38%  Similarity=0.784  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.+...++.|+++||||+|+.+.+.+.
T Consensus        88 ~~~~~~-~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~  147 (192)
T 2fg5_A           88 LAPMYY-RGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVP  147 (192)
T ss_dssp             GTHHHH-TTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSC
T ss_pred             hhHHhh-ccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccC
Confidence            356788 999999999999999999999999999988776789999999999997656554

>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=99.54  E-value=6e-15  Score=85.91  Aligned_cols=60  Identities=45%  Similarity=0.726  Sum_probs=52.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+......+.|+++||||+|+.+.+.++.
T Consensus        76 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~  135 (186)
T 2bme_A           76 TRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTF  135 (186)
T ss_dssp             HHTTS-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCH
T ss_pred             HHHHH-hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCH
Confidence            45688 9999999999999999999999999998877667899999999999976666653

>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=99.53  E-value=1e-14  Score=84.58  Aligned_cols=58  Identities=14%  Similarity=0.290  Sum_probs=47.2

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh---cCCCCeEEEEeeCCCCC--CCCCch
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH---ADSNIVIMMIGNKTDLK--HLPTSM   62 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~---~~~~~~~~lvgnK~Dl~--~~~~v~   62 (78)
                      ..|+ +++|++++|||+++++||+.+..|++.+...   ..+++|+++||||+|+.  ..+.++
T Consensus        67 ~~~~-~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~  129 (178)
T 2iwr_A           67 AKFS-GWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVG  129 (178)
T ss_dssp             HHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSC
T ss_pred             hHHH-HhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCC
Confidence            4578 9999999999999999999999976666443   33689999999999993  445555

>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=99.53  E-value=1e-14  Score=84.18  Aligned_cols=59  Identities=44%  Similarity=0.834  Sum_probs=52.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++.+++.+..|+..+.....++.|+++||||+|+.+.+.+.
T Consensus        81 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~  139 (179)
T 1z0f_A           81 TRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVT  139 (179)
T ss_dssp             HHHHH-HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC
T ss_pred             HHHHh-ccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccC
Confidence            45678 999999999999999999999999999988776789999999999997666654

>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=99.53  E-value=1e-14  Score=83.42  Aligned_cols=59  Identities=39%  Similarity=0.696  Sum_probs=51.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC---CCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL---PTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~---~~v~   62 (78)
                      +..|+ +++|++++|||++++++++.+..|+..+.....++.|+++||||+|+.+.   +.+.
T Consensus        69 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~  130 (170)
T 1ek0_A           69 APXYY-RNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVA  130 (170)
T ss_dssp             HHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSC
T ss_pred             hhhhh-ccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCC
Confidence            45678 99999999999999999999999999998876678999999999999654   4554

>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=99.53  E-value=1.9e-14  Score=84.69  Aligned_cols=59  Identities=20%  Similarity=0.420  Sum_probs=50.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC--CCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL--PTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~--~~v~   62 (78)
                      +++.|+ +++|++++|||+++++||+.+ ..|...+.... ++.|+++||||+|+.+.  +.+.
T Consensus        87 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~  148 (194)
T 3reg_A           87 LRPLSY-ADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVT  148 (194)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCC
T ss_pred             HhHhhc-cCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCccc
Confidence            567789 999999999999999999998 78999888765 78999999999999753  4444

>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=99.53  E-value=2e-14  Score=82.29  Aligned_cols=55  Identities=44%  Similarity=0.981  Sum_probs=49.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.....++.|+++||||+|+.+
T Consensus        68 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  122 (170)
T 1g16_A           68 ITTAYY-RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET  122 (170)
T ss_dssp             CCHHHH-TTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             hHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCc
Confidence            456788 9999999999999999999999999999887767899999999999943

>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=99.52  E-value=1.6e-14  Score=84.53  Aligned_cols=54  Identities=20%  Similarity=0.594  Sum_probs=48.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||+++++||+++ ..|+..+++.. ++.|+++||||+|+.+
T Consensus        71 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           71 VRPLSY-PDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT  125 (184)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGG
T ss_pred             hHHhhc-CCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhc
Confidence            457788 999999999999999999999 78999998775 6899999999999974

>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=99.52  E-value=1.4e-14  Score=85.14  Aligned_cols=57  Identities=11%  Similarity=0.289  Sum_probs=49.1

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCC--CCCCchH
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLK--HLPTSMS   63 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~--~~~~v~~   63 (78)
                      |+ +++|++++|||+++++||+++..|+..+..... .++|+++||||+|+.  ..+.++.
T Consensus        82 ~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~  141 (184)
T 3ihw_A           82 FA-AWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDD  141 (184)
T ss_dssp             HH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCH
T ss_pred             ee-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCH
Confidence            67 899999999999999999999999999987653 679999999999994  4455553

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.52  E-value=1.5e-14  Score=92.83  Aligned_cols=67  Identities=12%  Similarity=0.007  Sum_probs=48.8

Q ss_pred             cccchhcCCcEEEEEEECCCh--hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC-------CCchHHHHhccCc
Q 038356            3 NSAYYNRGALGALLVYDVTKS--TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL-------PTSMSIFQSLSGL   71 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~-------~~v~~~~~~~~~~   71 (78)
                      ++.|| |+|+++|+|||++++  ++++.+..|+.++.+.. +++|++++|||+||.++       |+++...++..+.
T Consensus        66 ~~~yy-r~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~-~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~  141 (331)
T 3r7w_B           66 SERLF-KSVGALVYVIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLE  141 (331)
T ss_dssp             HHHHH-TTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHC-TTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSS
T ss_pred             hhhhc-cCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcC-CCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHh
Confidence            57899 999999999999998  33334444455555444 78999999999999764       4566655554444

>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=99.52  E-value=3.6e-14  Score=83.38  Aligned_cols=55  Identities=25%  Similarity=0.523  Sum_probs=49.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..|+ +++|++++|||+++++||+.+. .|+..+.+.. ++.|+++||||+|+.+.
T Consensus        82 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  137 (194)
T 2atx_A           82 LRPLSY-PMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDD  137 (194)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTC
T ss_pred             HHHHhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccc
Confidence            457788 9999999999999999999996 8999998775 58999999999999763

>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=99.51  E-value=9e-15  Score=84.38  Aligned_cols=61  Identities=33%  Similarity=0.677  Sum_probs=53.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++.+|+.+..|+..+......+.|+++|+||+|+.+.+.+..
T Consensus        79 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~  139 (179)
T 2y8e_A           79 LIPSYI-RDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVST  139 (179)
T ss_dssp             GSHHHH-HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCH
T ss_pred             HHHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCH
Confidence            345678 9999999999999999999999999999877667899999999999977666553

>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=99.50  E-value=1.8e-14  Score=84.63  Aligned_cols=60  Identities=57%  Similarity=0.961  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++|+|||++++.+|+.+..|+..+......+.|+++||||+|+.+.+.+.
T Consensus        90 ~~~~~~-~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~  149 (193)
T 2oil_A           90 ITSAYY-RGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVP  149 (193)
T ss_dssp             THHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSC
T ss_pred             hhHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccC
Confidence            356788 999999999999999999999999999987766789999999999997766554

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.50  E-value=1e-14  Score=84.31  Aligned_cols=61  Identities=34%  Similarity=0.654  Sum_probs=50.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC---CCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD---SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+...   ...|+++||||+|+.+.+.++.
T Consensus        72 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~  135 (178)
T 2hxs_A           72 MLDKYI-YGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKP  135 (178)
T ss_dssp             THHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCH
T ss_pred             hhhHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCH
Confidence            456788 999999999999999999999999999876532   3345899999999987666653

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.50  E-value=1.4e-13  Score=81.66  Aligned_cols=56  Identities=20%  Similarity=0.289  Sum_probs=49.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|+ +++|++++|||+++++||+++..|+.++.+.. ..+.|+++||||+|+.+.
T Consensus        85 ~~~~~~-~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  141 (198)
T 1f6b_A           85 VWKNYL-PAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA  141 (198)
T ss_dssp             GGGGGG-GGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCcccc
Confidence            467899 99999999999999999999999999886653 367999999999999764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.50  E-value=1.2e-14  Score=85.64  Aligned_cols=60  Identities=37%  Similarity=0.689  Sum_probs=52.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||++++.||+.+..|+..+......+.|+++||||+|+.+.+.+..
T Consensus        92 ~~~~~-~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~  151 (192)
T 2il1_A           92 TSAYY-RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITR  151 (192)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCH
T ss_pred             HHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCH
Confidence            45678 9999999999999999999999999999887767899999999999987666653

>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=99.50  E-value=3.2e-14  Score=85.11  Aligned_cols=54  Identities=20%  Similarity=0.594  Sum_probs=48.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ ++++++++|||+++++||+++ ..|+..+++.. ++.|+++||||+|+.+
T Consensus        92 ~~~~~~-~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~  146 (205)
T 1gwn_A           92 VRPLSY-PDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT  146 (205)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGG
T ss_pred             HHHhhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhcc
Confidence            467788 999999999999999999999 79999998775 6899999999999964

>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=99.49  E-value=1.9e-14  Score=83.16  Aligned_cols=61  Identities=21%  Similarity=0.457  Sum_probs=51.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.+. ...+.|+++||||+|+.+.+.+..
T Consensus        73 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~  134 (181)
T 2fn4_A           73 MREQYM-RAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPR  134 (181)
T ss_dssp             CHHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCH
T ss_pred             HHHHHH-hhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCH
Confidence            346788 9999999999999999999999999988443 346899999999999987666653

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.49  E-value=2.4e-13  Score=80.15  Aligned_cols=62  Identities=18%  Similarity=0.318  Sum_probs=51.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ +++|++++|||+++++||+++..|+..+.+.. ..+.|+++||||+|+.+.....+.
T Consensus        83 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~  145 (190)
T 1m2o_B           83 LWKDYF-PEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAEL  145 (190)
T ss_dssp             SGGGGC-TTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHH
T ss_pred             HHHHHH-hcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCCCCHHHH
Confidence            456789 99999999999999999999999998886543 367999999999999764333333

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.49  E-value=1.7e-13  Score=78.20  Aligned_cols=64  Identities=17%  Similarity=0.263  Sum_probs=51.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.|+ +++|++++|||+++++||+.+..|+..+.... .++.|+++||||+|+.+.....+....
T Consensus        61 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  125 (164)
T 1r8s_A           61 WRHYF-QNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDK  125 (164)
T ss_dssp             HHHHT-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCCHHHHHHH
Confidence            45678 99999999999999999999999998886542 367999999999999775444444333

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.49  E-value=1.2e-13  Score=81.11  Aligned_cols=65  Identities=17%  Similarity=0.274  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--------CCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--------SNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--------~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++..|+ +++|++|+|||+++++||+.+..|+..+.+...        ++.|+++||||+|+.+.....+....
T Consensus        79 ~~~~~~-~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~  151 (199)
T 4bas_A           79 LWETYY-DNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEI  151 (199)
T ss_dssp             GGGGGC-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHHH-hcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHH
Confidence            456788 999999999999999999999999888865421        37999999999999877555544433

>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=99.48  E-value=3.6e-14  Score=82.66  Aligned_cols=59  Identities=37%  Similarity=0.663  Sum_probs=51.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++.+++.+..|+..+..... .+.|+++|+||+|+.+.+.+.
T Consensus        87 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~  146 (195)
T 3bc1_A           87 TTAFF-RDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVK  146 (195)
T ss_dssp             HHHTT-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSC
T ss_pred             HHHHH-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccC
Confidence            35678 999999999999999999999999999987764 689999999999997766554

>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=99.48  E-value=8.5e-14  Score=82.59  Aligned_cols=59  Identities=42%  Similarity=0.897  Sum_probs=50.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++.+|+.+..|+..+......+.|+++|+||+|+. .+.+.
T Consensus        85 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~  143 (213)
T 3cph_A           85 ITTAYY-RGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVT  143 (213)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS-SCCSC
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-ccccC
Confidence            456788 999999999999999999999999999988776689999999999994 34433

>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=99.48  E-value=2.3e-14  Score=81.90  Aligned_cols=60  Identities=22%  Similarity=0.426  Sum_probs=51.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.+.. .++.|+++||||+|+.+.+.++
T Consensus        67 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~  127 (167)
T 1c1y_A           67 MRDLYM-KNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVG  127 (167)
T ss_dssp             HHHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSC
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCC
Confidence            345778 99999999999999999999999999887654 3689999999999998766654

>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=99.48  E-value=1.1e-14  Score=85.97  Aligned_cols=60  Identities=30%  Similarity=0.460  Sum_probs=51.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.+.++.
T Consensus        92 ~~~~~-~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~  152 (196)
T 2atv_A           92 REGHM-RWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVST  152 (196)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCH
T ss_pred             hhhhh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCH
Confidence            45678 99999999999999999999999999987754 36899999999999987666653

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.48  E-value=1.5e-13  Score=80.47  Aligned_cols=64  Identities=20%  Similarity=0.284  Sum_probs=52.5

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      +..|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.+...+....
T Consensus        77 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~  141 (181)
T 1fzq_A           77 WRSYF-ENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEG  141 (181)
T ss_dssp             HHHHH-TTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHh-CCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHH
Confidence            45688 99999999999999999999999988875542 367999999999999876665554443

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.48  E-value=3.6e-13  Score=78.52  Aligned_cols=65  Identities=18%  Similarity=0.259  Sum_probs=53.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+.. .++.|+++||||+|+.+.....+....
T Consensus        78 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  143 (186)
T 1ksh_A           78 YWRNYF-ESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEA  143 (186)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHHHHHH
Confidence            456788 99999999999999999999999988886543 367999999999999876665544443

>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=99.47  E-value=3.2e-14  Score=81.31  Aligned_cols=59  Identities=32%  Similarity=0.549  Sum_probs=51.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||+++++|++.+..|+..+.... ++.|+++|+||+|+.+.+.+.
T Consensus        70 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~  128 (168)
T 1z2a_A           70 ITKAYY-RGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIK  128 (168)
T ss_dssp             CCHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSC
T ss_pred             HHHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccC
Confidence            456788 99999999999999999999999999997776 779999999999997766554

>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=99.47  E-value=1.8e-14  Score=88.93  Aligned_cols=53  Identities=21%  Similarity=0.223  Sum_probs=44.5

Q ss_pred             CCcEEEEEEECCCh--hhHHHHHHHHHHHhhh-cCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVTKS--TTFENVSRWLKDLGDH-ADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~~~--~s~~~~~~~~~~~~~~-~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +||++|+|||++++  +||+.+..|+.++.+. ..+++|+++||||+|+.+.+.+.
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~  217 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIR  217 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHHH
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHHH
Confidence            79999999999999  9999999999998765 33679999999999997766654

>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=99.47  E-value=3.1e-14  Score=85.02  Aligned_cols=59  Identities=37%  Similarity=0.651  Sum_probs=51.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++|+|||++++++|+.+..|+..+..... .+.|+++|+||+|+.+.+.+.
T Consensus       101 ~~~~~-~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~  160 (217)
T 2f7s_A          101 TTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVN  160 (217)
T ss_dssp             HHHHH-TTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSC
T ss_pred             HHHHh-cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccC
Confidence            45678 999999999999999999999999988876654 679999999999998766655

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.47  E-value=6.2e-14  Score=82.76  Aligned_cols=54  Identities=26%  Similarity=0.599  Sum_probs=48.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+.+
T Consensus        84 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~  138 (201)
T 2q3h_A           84 LRPLCY-TNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLRE  138 (201)
T ss_dssp             SGGGGG-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGG
T ss_pred             HhHhhc-CCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhh
Confidence            456788 9999999999999999999996 7999998776 5899999999999965

>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=99.47  E-value=2.1e-14  Score=81.88  Aligned_cols=59  Identities=22%  Similarity=0.471  Sum_probs=51.6

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++.|+ +++|++++|||++++++|+.+..|+..+.+... .+.|+++|+||+|+.+.+.+.
T Consensus        69 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~  128 (168)
T 1u8z_A           69 RDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVS  128 (168)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSC
T ss_pred             HHHHh-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccC
Confidence            45678 999999999999999999999999999987664 579999999999997766654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.47  E-value=3e-13  Score=79.86  Aligned_cols=66  Identities=15%  Similarity=0.287  Sum_probs=52.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.... .++.|+++||||+|+.+.....+.....
T Consensus        89 ~~~~~~-~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~  155 (192)
T 2b6h_A           89 LWRHYF-QNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKL  155 (192)
T ss_dssp             THHHHH-HTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHT
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCCHHHHHHHh
Confidence            345688 99999999999999999999999998886543 3679999999999997765544444433

>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=99.47  E-value=1.7e-14  Score=85.36  Aligned_cols=53  Identities=40%  Similarity=0.779  Sum_probs=45.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      +..|+ +++|++|+|||++++.+|+.+..|+..+......+.|+++||||+|+.
T Consensus        94 ~~~~~-~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~  146 (199)
T 2p5s_A           94 AKSYF-RKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIR  146 (199)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGH
T ss_pred             HHHHH-hhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc
Confidence            45678 999999999999999999999999999987766789999999999995

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.46  E-value=5.2e-13  Score=77.81  Aligned_cols=64  Identities=22%  Similarity=0.207  Sum_probs=52.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.....+...
T Consensus        81 ~~~~~~-~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~  145 (181)
T 2h17_A           81 SWNTYY-TNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQ  145 (181)
T ss_dssp             GGGGGG-TTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHH
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCCHHHHHH
Confidence            456789 99999999999999999999999988886543 36799999999999976544444433

>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=99.46  E-value=1.6e-13  Score=80.23  Aligned_cols=55  Identities=24%  Similarity=0.314  Sum_probs=47.1

Q ss_pred             cccchhcCCcEEEEEEECC------ChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVT------KSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~------~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ++.|+ +++|++++|||++      ++++|+.+..|+.+++.. .++.|+++||||+|+.+..
T Consensus        91 ~~~~~-~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~-~~~~piilv~NK~Dl~~~~  151 (198)
T 3t1o_A           91 RKLIL-RGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLT-LDDVPIVIQVNKRDLPDAL  151 (198)
T ss_dssp             HHHHT-TTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCC-TTSSCEEEEEECTTSTTCC
T ss_pred             HHHHH-hcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccc-cCCCCEEEEEEchhccccc
Confidence            45788 9999999999999      778999999999888543 3789999999999997653

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.46  E-value=2.6e-13  Score=81.38  Aligned_cols=56  Identities=38%  Similarity=0.661  Sum_probs=50.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ++..|+ ++++++++|||++++.||+.+..|+..+.+.. ++.|+++||||+|+.+.+
T Consensus        80 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~  135 (221)
T 3gj0_A           80 LRDGYY-IQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRK  135 (221)
T ss_dssp             CCHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCS
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCcccccc
Confidence            456788 99999999999999999999999999998876 689999999999997543

>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=99.46  E-value=5.6e-14  Score=82.91  Aligned_cols=59  Identities=22%  Similarity=0.471  Sum_probs=51.6

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||+++++||+.+..|+..+.+... .+.|+++||||+|+.+.+.++
T Consensus        79 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~  138 (206)
T 2bov_A           79 RDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVS  138 (206)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSC
T ss_pred             HHHHH-hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcccccccc
Confidence            45678 999999999999999999999999999987763 579999999999998766654

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.45  E-value=4.6e-13  Score=76.76  Aligned_cols=64  Identities=16%  Similarity=0.195  Sum_probs=52.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.... ..+.|+++||||+|+.+.+...+...
T Consensus        67 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  131 (171)
T 1upt_A           67 YWRCYY-SNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMAN  131 (171)
T ss_dssp             GGGGGC-TTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHH
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHH
Confidence            456788 99999999999999999999988888876543 26799999999999987655444433

>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=99.45  E-value=1.2e-13  Score=79.72  Aligned_cols=55  Identities=38%  Similarity=0.739  Sum_probs=46.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.....    .+.|+++||||+|+.+
T Consensus        74 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  132 (182)
T 1ky3_A           74 LGVAFY-RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE  132 (182)
T ss_dssp             ---CCS-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCG
T ss_pred             hhHHHh-hcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccc
Confidence            356788 999999999999999999999999999876653    6789999999999953

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.45  E-value=2.9e-14  Score=84.86  Aligned_cols=57  Identities=30%  Similarity=0.578  Sum_probs=49.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++.|+ +++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+.+.+.
T Consensus        73 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~  130 (212)
T 2j0v_A           73 LRPLSY-RGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKG  130 (212)
T ss_dssp             --CGGG-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHH
T ss_pred             HHHhhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCcc
Confidence            467789 9999999999999999999996 8999998776 5899999999999976543

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.45  E-value=7.4e-13  Score=77.45  Aligned_cols=65  Identities=18%  Similarity=0.228  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      +++.|+ +++|++++|||+++++||+.+..|+..+.... .++.|+++||||+|+.+.....+....
T Consensus        82 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  147 (189)
T 2x77_A           82 YWRCYF-SDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQ  147 (189)
T ss_dssp             CCSSSS-TTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHHh-hcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCHHHHHHH
Confidence            456788 99999999999999999999999888876543 367999999999999876554444433

>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=99.45  E-value=4.4e-14  Score=80.46  Aligned_cols=60  Identities=20%  Similarity=0.421  Sum_probs=51.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ ++++++++|||++++++|+.+..|...+.+... .+.|+++|+||+|+.+.+++..
T Consensus        68 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~  128 (167)
T 1kao_A           68 RDLYI-KNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSS  128 (167)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCH
T ss_pred             HHHHh-ccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCH
Confidence            45678 999999999999999999999999998876653 6799999999999976666553

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.45  E-value=4.4e-14  Score=82.77  Aligned_cols=59  Identities=19%  Similarity=0.373  Sum_probs=50.8

Q ss_pred             ccccchhcCCcEEEEEEECCCh-hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKS-TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|||++++ ++|+.+..|+.++.... ++.|+++||||+|+.+.+.++
T Consensus        72 ~~~~~~-~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~  131 (184)
T 2zej_A           72 THPHFM-TQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRK  131 (184)
T ss_dssp             TSHHHH-HHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHH
T ss_pred             hhHHHc-cCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhH
Confidence            456788 999999999999997 68999999999987765 579999999999998766654

>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=99.45  E-value=1.9e-13  Score=79.95  Aligned_cols=55  Identities=44%  Similarity=0.851  Sum_probs=48.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ +++|++++|||++++.+++.+..|+.++..... .+.|+++|+||+|+.+
T Consensus        80 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A           80 LTPSYY-RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             SHHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             hhHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc
Confidence            456788 999999999999999999999999999987653 6799999999999953

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.45  E-value=8.3e-13  Score=76.59  Aligned_cols=65  Identities=15%  Similarity=0.220  Sum_probs=53.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++|+||+|+.+.....+....
T Consensus        78 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~  143 (183)
T 1moz_A           78 YWRCYY-ADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKE  143 (183)
T ss_dssp             TGGGTT-TTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHH
Confidence            456788 99999999999999999999999998887654 367999999999999775544444443

>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=99.45  E-value=4.2e-14  Score=82.05  Aligned_cols=59  Identities=22%  Similarity=0.471  Sum_probs=51.4

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+..... .+.|+++|+||+|+.+.+.+.
T Consensus        83 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~  142 (187)
T 2a9k_A           83 RDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVS  142 (187)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSC
T ss_pred             HHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccC
Confidence            45678 999999999999999999999999999977664 579999999999997766554

>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=99.44  E-value=3.8e-14  Score=82.12  Aligned_cols=57  Identities=30%  Similarity=0.594  Sum_probs=50.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++..|+ +++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+.+.+.
T Consensus        72 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~  129 (182)
T 3bwd_D           72 LRPLSY-RGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQ  129 (182)
T ss_dssp             TGGGGG-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHH
T ss_pred             hHHhhc-cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcc
Confidence            467788 9999999999999999999996 7999998775 5899999999999976554

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.44  E-value=4.6e-13  Score=78.33  Aligned_cols=61  Identities=20%  Similarity=0.195  Sum_probs=51.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.+.. ..+.|+++||||+|+.+.....+
T Consensus        76 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~  137 (187)
T 1zj6_A           76 SWNTYY-TNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAE  137 (187)
T ss_dssp             GGHHHH-TTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHH
T ss_pred             HHHHHh-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHH
Confidence            356788 99999999999999999999999998887653 26799999999999976544333

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.44  E-value=7.8e-14  Score=88.06  Aligned_cols=57  Identities=16%  Similarity=0.140  Sum_probs=49.3

Q ss_pred             CccccchhcCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            1 VINSAYYNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      ++++.|| +++|++|+|||+++++ +|+.+..|+..+..   .++|+++||||+||.+.+.+
T Consensus        76 ~l~~~~~-~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~---~~~piilv~NK~DL~~~~~v  133 (301)
T 1u0l_A           76 LLTKPHV-ANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDDL  133 (301)
T ss_dssp             EETTTTE-ESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHH
T ss_pred             eeecccc-ccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEeHHHcCCchhH
Confidence            3678899 9999999999999998 79999999988764   46899999999999876553

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.44  E-value=6.5e-13  Score=77.92  Aligned_cols=65  Identities=22%  Similarity=0.334  Sum_probs=52.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++..|+ +++|++++|||++++++|+.+..|+..+.+.. ..+.|+++||||+|+.+.....+....
T Consensus        83 ~~~~~~-~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~  148 (188)
T 1zd9_A           83 MWERYC-RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEK  148 (188)
T ss_dssp             THHHHH-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHHHHH-ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCCHHHHHHH
Confidence            456788 99999999999999999999999988886543 367999999999999765444443333

>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=99.43  E-value=2.6e-13  Score=80.41  Aligned_cols=55  Identities=22%  Similarity=0.543  Sum_probs=49.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..|+ +++|++++|||++++++|+.+ ..|...+.... ++.|+++||||+|+.+.
T Consensus        89 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  144 (201)
T 2gco_A           89 LRPLSY-PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQD  144 (201)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTC
T ss_pred             HHHHhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcC
Confidence            456788 999999999999999999999 78999888765 68999999999999765

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.43  E-value=1.1e-12  Score=76.85  Aligned_cols=62  Identities=26%  Similarity=0.400  Sum_probs=51.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC---CCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD---SNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ++..|+ +++|++++|||+++++||+.+..|+..+.....   .+.|+++||||+|+.+.....+.
T Consensus        83 ~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~  147 (190)
T 2h57_A           83 LWEHYY-KEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKV  147 (190)
T ss_dssp             GGGGGG-GGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHH
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHH
Confidence            456788 999999999999999999999999988866543   57999999999999765444433

>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=99.42  E-value=3.9e-13  Score=77.52  Aligned_cols=58  Identities=31%  Similarity=0.576  Sum_probs=49.6

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +..|+ +++|++++|||++++++++.+..|+..+.....    .+.|+++||||+|+. .+.+.
T Consensus        73 ~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~  134 (177)
T 1wms_A           73 RTPFY-RGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVS  134 (177)
T ss_dssp             HGGGG-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSC
T ss_pred             HHHHH-hcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccC
Confidence            45788 999999999999999999999999999876653    678999999999997 34443

>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=99.42  E-value=1.4e-13  Score=81.31  Aligned_cols=52  Identities=12%  Similarity=0.119  Sum_probs=44.8

Q ss_pred             ccchhcCCcEEEEEEECCCh--hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKS--TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.|| +++|++|+|||++++  ++++.+..|+.++.... +++|+++||||+|+.+
T Consensus        90 ~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~-~~~piilv~nK~Dl~~  143 (196)
T 3llu_A           90 EMIF-RGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIHKVDGLS  143 (196)
T ss_dssp             HHHH-HTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSC
T ss_pred             cccc-ccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcC-CCCcEEEEEeccccCc
Confidence            6788 999999999999998  78888888888775544 7899999999999865

>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=99.42  E-value=1.3e-13  Score=82.64  Aligned_cols=56  Identities=30%  Similarity=0.628  Sum_probs=44.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++.|+ +++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+.+.+
T Consensus        98 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~  154 (214)
T 2j1l_A           98 LRPLFY-PDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDK  154 (214)
T ss_dssp             --------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCH
T ss_pred             HHHHHh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccc
Confidence            456788 9999999999999999999995 7999998765 679999999999997653

>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=3.2e-13  Score=78.48  Aligned_cols=55  Identities=22%  Similarity=0.540  Sum_probs=48.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||++++++|+.+..|...+.... ..+.|+++||||+|+.+
T Consensus        68 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  123 (189)
T 4dsu_A           68 MRDQYM-RTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS  123 (189)
T ss_dssp             THHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS
T ss_pred             HHHHHH-hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc
Confidence            456788 99999999999999999999999999997755 36899999999999974

>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=99.41  E-value=1.9e-13  Score=79.34  Aligned_cols=55  Identities=25%  Similarity=0.563  Sum_probs=48.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..|+ +++|++++|||++++.||+.+. .|+..+.... ++.|+++||||+|+.+.
T Consensus        69 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  124 (186)
T 1mh1_A           69 LRPLSY-PQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD  124 (186)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTC
T ss_pred             HHHHhc-cCCcEEEEEEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEccccccc
Confidence            456788 9999999999999999999996 7999998775 58999999999999654

>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=99.40  E-value=6.6e-13  Score=78.41  Aligned_cols=55  Identities=36%  Similarity=0.678  Sum_probs=48.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ +++|++|+|||++++++|+.+..|+..+.....    .+.|+++||||+|+.+
T Consensus        73 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  131 (207)
T 1vg8_A           73 LGVAFY-RGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN  131 (207)
T ss_dssp             SCCGGG-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC
T ss_pred             hHHHHH-hCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcc
Confidence            456788 999999999999999999999999998876542    4789999999999973

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.40  E-value=5.8e-14  Score=80.40  Aligned_cols=60  Identities=22%  Similarity=0.308  Sum_probs=50.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +..|+ +++|++++|||++++++++.+..|+..+.+...  ++.|+++||||+|+.+.+.+..
T Consensus        68 ~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~  129 (172)
T 2erx_A           68 QRLSI-SKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQS  129 (172)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCH
T ss_pred             HHHhc-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCH
Confidence            45678 899999999999999999999999888876542  5799999999999977666653

>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=99.40  E-value=7.2e-13  Score=77.46  Aligned_cols=55  Identities=24%  Similarity=0.539  Sum_probs=45.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|+ ++++++++|||++++.+|+.+..|...+..... .+.|+++|+||+|+.+
T Consensus        85 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  140 (190)
T 3con_A           85 MRDQYM-RTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT  140 (190)
T ss_dssp             -----C-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC
T ss_pred             HHHHhh-CcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc
Confidence            356788 999999999999999999999999999877653 5799999999999975

>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=99.39  E-value=5.1e-13  Score=79.48  Aligned_cols=55  Identities=22%  Similarity=0.518  Sum_probs=48.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..|+ +++|++++|||++++++|+.+ ..|...+.... ++.|+++||||+|+.+.
T Consensus        89 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  144 (207)
T 2fv8_A           89 LRPLSY-PDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSD  144 (207)
T ss_dssp             TGGGGC-TTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGC
T ss_pred             HHHhhc-CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhcc
Confidence            456788 999999999999999999999 78999888765 68999999999999654

>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=99.38  E-value=5.6e-13  Score=79.31  Aligned_cols=57  Identities=25%  Similarity=0.520  Sum_probs=50.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++..|+ +++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+.+.+.
T Consensus        94 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~  151 (204)
T 4gzl_A           94 LRPLSY-PQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKD  151 (204)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHH
T ss_pred             HHHHHh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchh
Confidence            456788 9999999999999999999996 8999998776 7899999999999976543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.38  E-value=1.3e-12  Score=76.30  Aligned_cols=57  Identities=32%  Similarity=0.606  Sum_probs=47.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ +++|++++|||++++.+++.+..|+..+....+  .|+++|+||+| ...+.+.
T Consensus       109 ~~~~~~-~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D-~~~~~~~  165 (208)
T 3clv_A          109 IVPLYY-RGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKID-KNKFQVD  165 (208)
T ss_dssp             THHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTT-CC-CCSC
T ss_pred             HHHHHh-cCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCC-cccccCC
Confidence            346778 999999999999999999999999999987653  99999999999 4444444

>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=99.36  E-value=8.3e-13  Score=74.92  Aligned_cols=54  Identities=24%  Similarity=0.578  Sum_probs=47.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~   57 (78)
                      +..|+ +++|++++|||++++++++.+..|...+..... .+.|+++|+||+|+.+
T Consensus        68 ~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~  122 (166)
T 2ce2_X           68 RDQYM-RTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA  122 (166)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC
T ss_pred             HHHhh-ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh
Confidence            34678 999999999999999999999999999877653 4799999999999976

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.35  E-value=6.4e-13  Score=87.11  Aligned_cols=57  Identities=12%  Similarity=0.159  Sum_probs=50.3

Q ss_pred             CccccchhcCCcEEEEEEECCC----------hhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCC
Q 038356            1 VINSAYYNRGALGALLVYDVTK----------STTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++++.|| ++++++|+|||+++          +++|+++..|++.+..+. .+++|++|+|||+||.++
T Consensus       232 ~~w~~yf-~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~  299 (402)
T 1azs_C          232 RKWIQCF-NDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAE  299 (402)
T ss_dssp             GGGGGGT-TTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHHHH
T ss_pred             hhhHhhc-cCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhhhh
Confidence            3678999 99999999999999          999999999999987653 478999999999998543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.34  E-value=3e-12  Score=81.62  Aligned_cols=67  Identities=18%  Similarity=0.287  Sum_probs=53.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      ++..|+ +++|++|+|||++++++|+.+..|+..+.... .+++|+++||||+|+.+.....+....++
T Consensus       225 ~~~~~~-~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~i~~~~~  292 (329)
T 3o47_A          225 LWRHYF-QNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLG  292 (329)
T ss_dssp             SHHHHH-TTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHT
T ss_pred             HHHHHh-ccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHHHHHHhc
Confidence            456788 99999999999999999999988777765433 36899999999999987766555554443

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.34  E-value=7.3e-13  Score=83.70  Aligned_cols=55  Identities=16%  Similarity=0.274  Sum_probs=45.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc--CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA--DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|+ +++|++++|||+++++||+++..|...+.+..  .+++|+++||||+|+.+
T Consensus        73 ~~~~~~-~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~  129 (307)
T 3r7w_A           73 QKDHIF-QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ  129 (307)
T ss_dssp             THHHHH-TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC
T ss_pred             HHHHHh-ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccc
Confidence            456788 99999999999999999999987755553321  36899999999999976

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.32  E-value=8e-13  Score=85.39  Aligned_cols=56  Identities=9%  Similarity=0.098  Sum_probs=49.2

Q ss_pred             CccccchhcCCcEEEEEEECC----------ChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            1 VINSAYYNRGALGALLVYDVT----------KSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      ++++.|| ++++++|+|||++          +.++|+++..|++.+.++. .+++|++|+|||+||.+
T Consensus       198 ~~~~~y~-~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~~  264 (354)
T 2xtz_A          198 RKWIHLF-EGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIFE  264 (354)
T ss_dssp             GGTGGGC-TTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHH
T ss_pred             HHHHHHh-CCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchhh
Confidence            3678999 9999999999999          8899999999999887653 36899999999999854

>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=99.32  E-value=8.7e-13  Score=77.39  Aligned_cols=54  Identities=22%  Similarity=0.328  Sum_probs=46.5

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKH   57 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~   57 (78)
                      +..|+ +++|++++|||++++++|+.+..|+..+.+...  ++.|+++||||+|+.+
T Consensus        73 ~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~  128 (199)
T 2gf0_A           73 QRLSI-SKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ  128 (199)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS
T ss_pred             HHHhh-ccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc
Confidence            45678 999999999999999999999989887766542  4789999999999975

>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=99.30  E-value=1.6e-12  Score=81.49  Aligned_cols=55  Identities=22%  Similarity=0.507  Sum_probs=48.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..|+ +++|++++|||++++.||+.+. .|+..+.... ++.|+++||||+|+.+.
T Consensus       219 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~  274 (332)
T 2wkq_A          219 LRPLSY-PQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD  274 (332)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTC
T ss_pred             HHHHhc-cCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccc
Confidence            456788 9999999999999999999996 7999988775 58999999999999653

>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=98.97  E-value=2e-13  Score=80.88  Aligned_cols=56  Identities=25%  Similarity=0.529  Sum_probs=48.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++.|+ +++|++++|||++++++|+.+. .|+..+.... ++.|+++||||+|+.+.+
T Consensus        94 ~~~~~~-~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~  150 (204)
T 3th5_A           94 LRPLSY-PQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDK  150 (204)
Confidence            456788 9999999999999999999996 8988887665 489999999999997543

>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=99.29  E-value=5.8e-12  Score=74.47  Aligned_cols=60  Identities=70%  Similarity=1.149  Sum_probs=51.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..|+ ++++++++|||+++..+|+++..|+..+......+.|++++|||+|+.+.+.++
T Consensus        70 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~  129 (199)
T 2f9l_A           70 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP  129 (199)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC
T ss_pred             hhHHHH-hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcC
Confidence            345678 999999999999999999999999988876655678999999999998766554

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.29  E-value=8.8e-12  Score=72.94  Aligned_cols=64  Identities=22%  Similarity=0.345  Sum_probs=51.1

Q ss_pred             ccchhcC----CcEEEEEEECC-ChhhHHHHHHHHHHHhhh----cCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            4 SAYYNRG----ALGALLVYDVT-KSTTFENVSRWLKDLGDH----ADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         4 ~~y~~~~----a~~~ilv~d~~-~~~s~~~~~~~~~~~~~~----~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ..|+ ++    +|++++|||++ ++++|+.+..|+..+...    ..++.|+++||||+|+.+.+.+.+....+
T Consensus       109 ~~~~-~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l  181 (193)
T 2ged_A          109 SDYL-KTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL  181 (193)
T ss_dssp             HHHH-HHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             HHHH-HhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHH
Confidence            3455 55    89999999999 999999998888877543    23679999999999998888776555443

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.26  E-value=6.9e-12  Score=73.98  Aligned_cols=60  Identities=70%  Similarity=1.149  Sum_probs=51.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +.+.|+ ++++++++|||+++..+|+++..|+..+.+....+.|+++++||+|+.+.+.+.
T Consensus        94 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~  153 (191)
T 1oix_A           94 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP  153 (191)
T ss_dssp             CCHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSC
T ss_pred             hhHHHh-hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccC
Confidence            456788 999999999999999999999999988876655678999999999997665554

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.23  E-value=3.2e-12  Score=82.27  Aligned_cols=55  Identities=16%  Similarity=0.202  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECC----------ChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVT----------KSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|| ++++|+|+|||++          +.++|++...|+..+..+. .+++|++|+|||+||.+
T Consensus       177 ~w~~yy-~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~  242 (340)
T 4fid_A          177 XWVSFF-SDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFE  242 (340)
T ss_dssp             HHHTTS-CSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHH
T ss_pred             cHHHHh-ccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhh
Confidence            567899 9999999999999          8899999988988886654 37899999999999864

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.23  E-value=4.9e-12  Score=81.68  Aligned_cols=54  Identities=11%  Similarity=0.207  Sum_probs=47.5

Q ss_pred             ccccchhcCCcEEEEEEECCC----------hhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTK----------STTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~   56 (78)
                      ++..|| ++++++|+|||+++          .++|++...|++.+..+. ..++|++|+|||+||.
T Consensus       209 ~w~~yf-~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~  273 (353)
T 1cip_A          209 KWIHCF-EGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  273 (353)
T ss_dssp             GGGGGC-TTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             HHHHHH-hcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCch
Confidence            678999 99999999999999          578999999999887653 3679999999999995

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.20  E-value=6.7e-11  Score=70.30  Aligned_cols=60  Identities=15%  Similarity=0.202  Sum_probs=44.5

Q ss_pred             ccccchhcCCcEEEEEEECCChh-hHHHHHH-HHHHHhhh--cCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKST-TFENVSR-WLKDLGDH--ADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~-s~~~~~~-~~~~~~~~--~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|||+++.+ ++..+.. |...+...  ...+.|+++||||+|+.+.+...
T Consensus        71 ~~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~  134 (214)
T 2fh5_B           71 LLDRFK-SSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAK  134 (214)
T ss_dssp             HHHHHG-GGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHH
T ss_pred             HHHHHH-hhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHH
Confidence            345688 9999999999999964 5776644 55444432  23579999999999998766543

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.20  E-value=2.1e-11  Score=72.65  Aligned_cols=58  Identities=21%  Similarity=0.342  Sum_probs=48.6

Q ss_pred             ccchhcC----CcEEEEEEECC-ChhhHHHHHHHHHHHhhh----cCCCCeEEEEeeCCCCCCCCCch
Q 038356            4 SAYYNRG----ALGALLVYDVT-KSTTFENVSRWLKDLGDH----ADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         4 ~~y~~~~----a~~~ilv~d~~-~~~s~~~~~~~~~~~~~~----~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ..|+ ++    ++++++|+|.+ ++++|+.+..|+.++...    ..+++|+++|+||+|+.+.+.+.
T Consensus        73 ~~~~-~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  139 (218)
T 1nrj_B           73 SDYL-KTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPS  139 (218)
T ss_dssp             HHHH-HHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHH
T ss_pred             HHHH-HhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHH
Confidence            4566 66    89999999999 999999999998888654    34689999999999998877654

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.18  E-value=1.8e-11  Score=79.25  Aligned_cols=55  Identities=16%  Similarity=0.212  Sum_probs=47.7

Q ss_pred             ccccchhcCCcEEEEEEECCC----------hhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTK----------STTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..|| ++++++|+|||+++          .++|+++..|+..+..+. ..++|++|+|||+||.+
T Consensus       217 ~w~~~f-~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~  282 (362)
T 1zcb_A          217 RWFECF-DSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  282 (362)
T ss_dssp             -CTTSC-TTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             hHHHHh-CCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhh
Confidence            578899 99999999999999          789999999998886653 36799999999999853

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.16  E-value=2.7e-11  Score=77.66  Aligned_cols=58  Identities=10%  Similarity=0.121  Sum_probs=48.0

Q ss_pred             CccccchhcCCcEEEEEEECC----------ChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCC
Q 038356            1 VINSAYYNRGALGALLVYDVT----------KSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++..|| ++++|+|+|||++          +.++|++...|++.+..+. ..++|++|+|||+||.+++
T Consensus       182 ~~w~~yf-~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~k  250 (327)
T 3ohm_A          182 RKWIHCF-ENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEK  250 (327)
T ss_dssp             TTGGGGC-SSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHH
T ss_pred             HHHHHHh-CCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhh
Confidence            4688999 9999999999654          7888999988888886543 3689999999999996543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.13  E-value=3.4e-11  Score=76.08  Aligned_cols=54  Identities=11%  Similarity=-0.012  Sum_probs=46.8

Q ss_pred             ccccchhcCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +.+.|+ +++|++++|+|+++++ |++.+..|+..+..   .++|+++|+||+||.+.+
T Consensus        72 l~r~~~-~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~  126 (302)
T 2yv5_A           72 LIRPKV-ANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEE  126 (302)
T ss_dssp             EETTEE-ESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHH
T ss_pred             HhHHHH-HhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCcc
Confidence            456789 9999999999999997 99999999987764   568999999999997654

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.06  E-value=3.4e-11  Score=69.97  Aligned_cols=51  Identities=16%  Similarity=0.183  Sum_probs=43.2

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ +++|++++|||.+++.|++ ...|+..+.+....++|+++||||+|+.+
T Consensus        79 ~~~-~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           79 QEI-EQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITG  129 (172)
T ss_dssp             HHH-HTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHC
T ss_pred             HHH-HhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCc
Confidence            468 9999999999999999987 45788888776656799999999999854

>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=99.01  E-value=6.1e-10  Score=67.06  Aligned_cols=57  Identities=16%  Similarity=0.036  Sum_probs=42.5

Q ss_pred             cchhcCCcEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            5 AYYNRGALGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      .++ +.+|++++|||++++.||+.  ...|+..+.... ++.|+++||||+|+.+.+.+..
T Consensus       104 ~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~~~~~~  162 (228)
T 2qu8_A          104 ALA-HINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNMDSLSI  162 (228)
T ss_dssp             HHH-TSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCCH
T ss_pred             Hhh-ccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCchhhHH
Confidence            356 89999999999999988763  246776665543 5799999999999987766653

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.97  E-value=6.9e-10  Score=74.43  Aligned_cols=58  Identities=14%  Similarity=0.184  Sum_probs=47.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +.+.|+ ++++++++|||+++.   +.+..|..++.... ++.|+++||||+|+.+.+.+...
T Consensus       114 ~~~~~l-~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~  171 (535)
T 3dpu_A          114 SHQFFM-TRSSVYMLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQK  171 (535)
T ss_dssp             TCHHHH-HSSEEEEEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHH
T ss_pred             HHHHHc-cCCcEEEEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHH
Confidence            445677 999999999998765   55678999998876 57999999999999877776543

>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=98.89  E-value=1.4e-09  Score=66.42  Aligned_cols=67  Identities=7%  Similarity=-0.019  Sum_probs=49.0

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHH----hhhc-CCCCeEEEEeeCC-CCCCCCCchHHHHhcc
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL----GDHA-DSNIVIMMIGNKT-DLKHLPTSMSIFQSLS   69 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~----~~~~-~~~~~~~lvgnK~-Dl~~~~~v~~~~~~~~   69 (78)
                      ++|+.|| .++||+|+|.|.+|++.++ .+.-++++    .+.. -.++|++|.+||. |+++.....+....++
T Consensus       117 plWr~Yy-~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e~L~  189 (227)
T 3l82_B          117 PQIQKVC-EVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELH  189 (227)
T ss_dssp             CCHHHHH-HHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHHHTT
T ss_pred             HHHHHHh-cCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHHHcC
Confidence            4678999 9999999999999997655 33333222    2221 2578999999995 8888777777777664

>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=98.82  E-value=2.2e-09  Score=61.60  Aligned_cols=50  Identities=16%  Similarity=0.024  Sum_probs=38.7

Q ss_pred             ccchhc--CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNR--GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~--~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +.|+ +  +++++++|+|.++.++   ...|+.++.+   .+.|+++||||+|+.+.+.
T Consensus        74 ~~~~-~~~~~~~~i~v~D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~  125 (165)
T 2wji_A           74 RDYI-INEKPDLVVNIVDATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLG  125 (165)
T ss_dssp             HHHH-HHHCCSEEEEEEETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTT
T ss_pred             HHHH-hcCCCCEEEEEecCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccC
Confidence            5667 6  8999999999998654   4557777754   3689999999999865443

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.81  E-value=1.3e-08  Score=58.45  Aligned_cols=49  Identities=18%  Similarity=0.154  Sum_probs=36.5

Q ss_pred             ccccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++..++ +++|++++|||+++   +++++.+.    .+   ...+.|+++||||+|+.+.
T Consensus        71 ~~~~~~-~~~d~~i~v~d~~~~~~~~~~~~l~----~~---~~~~~p~ilv~nK~Dl~~~  122 (178)
T 2lkc_A           71 MRARGA-QVTDIVILVVAADDGVMPQTVEAIN----HA---KAANVPIIVAINKMDKPEA  122 (178)
T ss_dssp             SCCSSC-CCCCEEEEEEETTCCCCHHHHHHHH----HH---GGGSCCEEEEEETTTSSCS
T ss_pred             HHHHHH-hhCCEEEEEEECCCCCcHHHHHHHH----HH---HhCCCCEEEEEECccCCcC
Confidence            456778 99999999999998   45554432    22   2256899999999999763

>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=98.79  E-value=3.8e-10  Score=65.47  Aligned_cols=55  Identities=16%  Similarity=0.147  Sum_probs=42.8

Q ss_pred             ccchhcC-CcEEEEEEECCChhhHHHH-HHHHHH--------Hhh-hcCCCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRG-ALGALLVYDVTKSTTFENV-SRWLKD--------LGD-HADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~-a~~~ilv~d~~~~~s~~~~-~~~~~~--------~~~-~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..|+ ++ +++++++|++++.++|+++ ..|...        +.. ....+.|+++||||+|+.+.+
T Consensus        73 ~~~~-~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  138 (190)
T 2cxx_A           73 VHFI-EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV  138 (190)
T ss_dssp             HHHH-HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH
T ss_pred             HHHH-HhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH
Confidence            4567 77 9999999999999999998 778753        222 223579999999999997654

>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=98.78  E-value=5.4e-09  Score=67.21  Aligned_cols=55  Identities=13%  Similarity=0.219  Sum_probs=46.0

Q ss_pred             ccchhcC---CcEEEEEEECCC---hhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRG---ALGALLVYDVTK---STTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~---a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..|+ +.   ++++++|+|+++   +++++.+..|..++....+  .+.|+++|+||+|+.+.+
T Consensus       228 ~~fl-~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~  290 (342)
T 1lnz_A          228 HQFL-RHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA  290 (342)
T ss_dssp             HHHH-HHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH
T ss_pred             HHHH-HHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH
Confidence            4455 54   999999999999   8999999999999987653  478999999999997543

>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=98.76  E-value=6.3e-09  Score=60.66  Aligned_cols=53  Identities=17%  Similarity=0.212  Sum_probs=40.4

Q ss_pred             cccchhcCC---cEEEEEEECCChhhHHHHH--HHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGA---LGALLVYDVTKSTTFENVS--RWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a---~~~ilv~d~~~~~s~~~~~--~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .+.|+ +++   +++++|+|.+++.++....  .|+.   .   .+.|+++|+||+|+.+.+.+.
T Consensus        96 ~~~~~-~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~---~---~~~p~i~v~nK~Dl~~~~~~~  153 (195)
T 1svi_A           96 IETYI-TTREELKAVVQIVDLRHAPSNDDVQMYEFLK---Y---YGIPVIVIATKADKIPKGKWD  153 (195)
T ss_dssp             HHHHH-HHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---H---TTCCEEEEEECGGGSCGGGHH
T ss_pred             HHHHH-hhhhcCCEEEEEEECCCCCCHHHHHHHHHHH---H---cCCCEEEEEECcccCChHHHH
Confidence            34566 777   9999999999988887643  3332   2   568999999999998776654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.75  E-value=6e-09  Score=58.85  Aligned_cols=50  Identities=12%  Similarity=0.045  Sum_probs=35.1

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +++|++++|+|.++..+...  .|+......  .+.|+++||||+|+.+.
T Consensus        74 ~~~~-~~~~~~i~v~d~~~~~~~~~--~~~~~~~~~--~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           74 DRAL-EDAEVVLFAVDGRAELTQAD--YEVAEYLRR--KGKPVILVATKVDDPKH  123 (161)
T ss_dssp             HHHT-TTCSEEEEEEESSSCCCHHH--HHHHHHHHH--HTCCEEEEEECCCSGGG
T ss_pred             HHHH-HhCCEEEEEEECCCcccHhH--HHHHHHHHh--cCCCEEEEEECcccccc
Confidence            3567 89999999999998644322  222222222  46899999999999754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.68  E-value=3.9e-08  Score=63.11  Aligned_cols=54  Identities=9%  Similarity=0.147  Sum_probs=45.4

Q ss_pred             chhcCCcEEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            6 YYNRGALGALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +. ..+|++++|+|+++..  +++....|+..+.... ++.|+++|+||+|+.+...+
T Consensus       243 ~~-~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~-~~~piilV~NK~Dl~~~~~~  298 (357)
T 2e87_A          243 LR-YLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF-KDLPFLVVINKIDVADEENI  298 (357)
T ss_dssp             GG-GTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT-TTSCEEEEECCTTTCCHHHH
T ss_pred             HH-hcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc-CCCCEEEEEECcccCChHHH
Confidence            44 5799999999999988  7888889999988765 37999999999999765554

>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=98.65  E-value=1.9e-08  Score=63.55  Aligned_cols=49  Identities=16%  Similarity=0.064  Sum_probs=43.0

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ..++ +++|++++|+|.++..++.....|...+..   .+.|+++|+||+|+.
T Consensus        87 ~~~l-~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~  135 (308)
T 3iev_A           87 KQSL-EEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKI  135 (308)
T ss_dssp             HHHH-HHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGS
T ss_pred             HHHh-hcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCC
Confidence            4577 899999999999999999998888888765   358999999999997

>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=98.60  E-value=6.1e-08  Score=64.68  Aligned_cols=56  Identities=13%  Similarity=0.070  Sum_probs=41.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ..++ +++|++++|+|.+++.+++.+..+...+...  .+.|+++|+||+|+.+.+.+.
T Consensus       307 ~~~~-~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l--~~~piIvV~NK~Dl~~~~~~~  362 (476)
T 3gee_A          307 RMKM-AEADLILYLLDLGTERLDDELTEIRELKAAH--PAAKFLTVANKLDRAANADAL  362 (476)
T ss_dssp             -CCC-SSCSEEEEEEETTTCSSGGGHHHHHHHHHHC--TTSEEEEEEECTTSCTTTHHH
T ss_pred             Hhhc-ccCCEEEEEEECCCCcchhhhHHHHHHHHhc--CCCCEEEEEECcCCCCccchh
Confidence            4578 9999999999999999887544443333332  268999999999998766543

>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=98.58  E-value=9.3e-08  Score=60.37  Aligned_cols=53  Identities=21%  Similarity=0.314  Sum_probs=39.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHH-HHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWL-KDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~-~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|+ +++|++++|+|.++..+..  ..|+ +.+.+.. ++.|+++|+||+|+.+.+.
T Consensus        81 ~~~l-~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~  134 (301)
T 1wf3_A           81 YEAL-ADVNAVVWVVDLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAKYPE  134 (301)
T ss_dssp             HHHT-SSCSEEEEEEETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCSSHH
T ss_pred             HHHH-hcCCEEEEEEECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCCchH
Confidence            3578 9999999999999875543  3454 4555543 5799999999999976544

>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=98.58  E-value=3.2e-08  Score=62.92  Aligned_cols=66  Identities=8%  Similarity=-0.058  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHH----HHHhhhc-CCCCeEEEEeeC-CCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWL----KDLGDHA-DSNIVIMMIGNK-TDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~----~~~~~~~-~~~~~~~lvgnK-~Dl~~~~~v~~~~~~~~   69 (78)
                      +++.|| .++||+|+|.|.+|++.++ .+.-+    ..+.+.. -.++|++|.+|| .|+.+.....+..+.++
T Consensus       203 lWr~Yy-~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~e~L~  274 (312)
T 3l2o_B          203 QIQKVC-EVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELH  274 (312)
T ss_dssp             HHHHHH-HHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHHHHTT
T ss_pred             HHHHHh-cCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHHHHcC
Confidence            567899 9999999999999998665 32222    2222221 267999999997 69988777777777665

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.57  E-value=1.5e-08  Score=58.72  Aligned_cols=50  Identities=18%  Similarity=0.080  Sum_probs=38.2

Q ss_pred             ccchhc--CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNR--GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~--~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|+ +  +++++++|+|.++   ++....|...+..   .+.|+++||||+|+.+.+.
T Consensus        78 ~~~~-~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~  129 (188)
T 2wjg_A           78 RDYI-INEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLG  129 (188)
T ss_dssp             HHHH-HHHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTT
T ss_pred             HHHH-hccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhcccccc
Confidence            4566 5  4999999999875   5666778877765   4689999999999965443

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.53  E-value=7.9e-08  Score=55.70  Aligned_cols=50  Identities=18%  Similarity=0.282  Sum_probs=35.7

Q ss_pred             ccchhcCC---cEEEEEEECCChhh--HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGA---LGALLVYDVTKSTT--FENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a---~~~ilv~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +.|+ +++   +++++|+|.++..+  ...+..|+..      .+.|+++||||+|+.+...
T Consensus        96 ~~~~-~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~------~~~p~i~v~nK~Dl~~~~~  150 (195)
T 3pqc_A           96 EDYF-KNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS------LNIPFTIVLTKMDKVKMSE  150 (195)
T ss_dssp             HHHH-HHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSCGGG
T ss_pred             HHHH-hcCcCceEEEEEecCCCCCCHHHHHHHHHHHH------cCCCEEEEEEChhcCChHH
Confidence            4566 666   99999999987643  4444555543      2589999999999975443

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.45  E-value=2.9e-07  Score=60.44  Aligned_cols=52  Identities=13%  Similarity=0.028  Sum_probs=42.8

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .++ +++|++++|+|.++..+++.. .|...+.+   .+.|+++|+||+|+.+.+.+
T Consensus       253 ~~~-~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~  304 (436)
T 2hjg_A          253 KAI-DRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDES  304 (436)
T ss_dssp             HHH-HHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTT
T ss_pred             HHH-HhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchH
Confidence            367 899999999999999888775 57776654   46899999999999776554

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.41  E-value=5e-07  Score=59.58  Aligned_cols=50  Identities=16%  Similarity=0.133  Sum_probs=38.4

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .++ +++|++++|+|.+..+.   ...|+..+.+.   +.|+++|+||+|+.+.+..
T Consensus       109 ~~l-~~aD~vllVvD~~~~~~---~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~  158 (423)
T 3qq5_A          109 RVF-YRADCGILVTDSAPTPY---EDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE  158 (423)
T ss_dssp             HHH-TSCSEEEEECSSSCCHH---HHHHHHHHHHT---TCCEEEECCCCTTTTCCCT
T ss_pred             HHH-hcCCEEEEEEeCCChHH---HHHHHHHHHhc---CCCEEEEEeCcCCCCccHH
Confidence            477 89999999999944433   35677766654   6899999999999876654

>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=98.38  E-value=1.3e-07  Score=59.00  Aligned_cols=50  Identities=20%  Similarity=0.075  Sum_probs=37.9

Q ss_pred             cccchhc--CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNR--GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~--~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ++.|+ +  ++|++++|+|.++.++.   ..|..++.+   .+.|+++|+||+|+.+.+
T Consensus        72 ~~~~~-~~~~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~  123 (272)
T 3b1v_A           72 ARDYL-LSQRADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQ  123 (272)
T ss_dssp             HHHHH-HTTCCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHT
T ss_pred             HHHHH-hcCCCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcC
Confidence            35667 6  59999999999987654   446666654   468999999999986443

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.37  E-value=1.5e-07  Score=60.93  Aligned_cols=50  Identities=20%  Similarity=0.309  Sum_probs=39.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .+.++ ++++++++|+|++++.     ..|..++.+.. .+.|+++|+||+||.+..
T Consensus        63 l~~i~-~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~~  112 (368)
T 3h2y_A           63 LNGIG-KSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPKS  112 (368)
T ss_dssp             HHHHH-HSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCTT
T ss_pred             HHHHh-ccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCcc
Confidence            35678 8999999999999864     45777777665 478999999999996543

>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=98.37  E-value=1.6e-07  Score=57.98  Aligned_cols=64  Identities=13%  Similarity=0.033  Sum_probs=42.7

Q ss_pred             ccchh-cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc----hHHHHhccCccc
Q 038356            4 SAYYN-RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS----MSIFQSLSGLLF   73 (78)
Q Consensus         4 ~~y~~-~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v----~~~~~~~~~~~f   73 (78)
                      +.|+. +++|++++|+|.++.++..   .|..++.+   .+.|+++|+||+|+.+.+.+    ......++.+.+
T Consensus        76 ~~~~~~~~~d~ii~V~D~t~~~~~~---~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~~~~~l~~~lg~~vi  144 (258)
T 3a1s_A           76 RDYLLKGDADLVILVADSVNPEQSL---YLLLEILE---MEKKVILAMTAIDEAKKTGMKIDRYELQKHLGIPVV  144 (258)
T ss_dssp             HHHHHHSCCSEEEEEEETTSCHHHH---HHHHHHHT---TTCCEEEEEECHHHHHHTTCCBCHHHHHHHHCSCEE
T ss_pred             HHHHhhcCCCEEEEEeCCCchhhHH---HHHHHHHh---cCCCEEEEEECcCCCCccchHHHHHHHHHHcCCCEE
Confidence            34540 3899999999999976543   46666654   36899999999998654433    344444454433

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.33  E-value=2.1e-07  Score=55.29  Aligned_cols=52  Identities=19%  Similarity=0.160  Sum_probs=36.4

Q ss_pred             cchhcC---CcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRG---ALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~---a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .|+ ++   +|++++|+|.++.-+- .-..|+..+..   .+.|+++|+||+|+.+.+.+
T Consensus       108 ~~~-~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~  162 (223)
T 4dhe_A          108 SYL-QTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQES  162 (223)
T ss_dssp             HHH-HHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHH
T ss_pred             HHH-hcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhH
Confidence            455 55   7889999999875432 22445555554   45899999999999765543

>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=98.32  E-value=3.3e-07  Score=56.93  Aligned_cols=46  Identities=15%  Similarity=-0.016  Sum_probs=34.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +++|++++|+|.++.++...+..|   +.+.   +.|+++|+||+|+.+.+.
T Consensus        84 ~~~d~ii~VvD~~~~~~~~~~~~~---l~~~---~~p~ivv~NK~Dl~~~~~  129 (274)
T 3i8s_A           84 GDADLLINVVDASNLERNLYLTLQ---LLEL---GIPCIVALNMLDIAEKQN  129 (274)
T ss_dssp             TCCSEEEEEEEGGGHHHHHHHHHH---HHHH---TCCEEEEEECHHHHHHTT
T ss_pred             cCCCEEEEEecCCChHHHHHHHHH---HHhc---CCCEEEEEECccchhhhh
Confidence            699999999999997766554444   3332   589999999999865443

>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=98.29  E-value=1.3e-06  Score=57.64  Aligned_cols=52  Identities=15%  Similarity=0.047  Sum_probs=39.0

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      |+ +++|++++|+|.++.-+ +....|...+.+   .+.|+++|+||+|+.+.+.+.
T Consensus       274 ~~-~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~  325 (456)
T 4dcu_A          274 AI-DRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDEST  325 (456)
T ss_dssp             HH-HHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSH
T ss_pred             HH-hhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHH
Confidence            66 89999999999987533 233556666554   458999999999998766553

>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=98.28  E-value=1.6e-06  Score=57.70  Aligned_cols=50  Identities=18%  Similarity=0.101  Sum_probs=38.7

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      .++ +++|++++|+|.+++.+... ..|+..+.     +.|+++|+||+|+.+.+.+
T Consensus       299 ~~~-~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~  348 (462)
T 3geh_A          299 QAA-NTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLI  348 (462)
T ss_dssp             CCC-CSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGS
T ss_pred             hhh-hcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhh
Confidence            467 89999999999999877655 45555543     3699999999999765543

>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=98.27  E-value=2.1e-07  Score=57.43  Aligned_cols=58  Identities=10%  Similarity=-0.072  Sum_probs=40.2

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc----hHHHHhccCcc
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS----MSIFQSLSGLL   72 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v----~~~~~~~~~~~   72 (78)
                      +++|++++|+|.++.+++..+..|   +.+   .+.|+++|+||+|+.+.+.+    ......++.+.
T Consensus        82 ~~~d~vi~VvDas~~~~~~~l~~~---l~~---~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~lg~~v  143 (256)
T 3iby_A           82 LEYDCIINVIDACHLERHLYLTSQ---LFE---LGKPVVVALNMMDIAEHRGISIDTEKLESLLGCSV  143 (256)
T ss_dssp             SCCSEEEEEEEGGGHHHHHHHHHH---HTT---SCSCEEEEEECHHHHHHTTCEECHHHHHHHHCSCE
T ss_pred             CCCCEEEEEeeCCCchhHHHHHHH---HHH---cCCCEEEEEEChhcCCcCCcHHHHHHHHHHcCCCE
Confidence            589999999999998777665444   332   36899999999998654433    23444444433

>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=98.27  E-value=2.5e-06  Score=55.16  Aligned_cols=52  Identities=23%  Similarity=0.087  Sum_probs=42.2

Q ss_pred             chhcCCcEEEEEEECCChh--hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKST--TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ +.+|++++|+|.+++.  +.+.+..|.+.+......+.|+++|+||+|+...
T Consensus       254 ~~-~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~  307 (364)
T 2qtf_A          254 EA-KYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKING  307 (364)
T ss_dssp             GG-GGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCS
T ss_pred             HH-HhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCc
Confidence            46 8999999999999987  6777777777666654467899999999998654

>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=98.24  E-value=2.4e-06  Score=58.41  Aligned_cols=48  Identities=21%  Similarity=0.115  Sum_probs=38.3

Q ss_pred             ccccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..++ +.+|++|+|+|.++   +.|++.+..+    +.   .++|+++++||+|+.+
T Consensus        86 ~~~r~~-~~aD~aILVvDa~~Gv~~qT~e~l~~l----~~---~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           86 LRKRGG-ALADLAILIVDINEGFKPQTQEALNIL----RM---YRTPFVVAANKIDRIH  136 (594)
T ss_dssp             SBCSSS-BSCSEEEEEEETTTCCCHHHHHHHHHH----HH---TTCCEEEEEECGGGST
T ss_pred             HHHHHH-hhCCEEEEEEECCCCccHhHHHHHHHH----HH---cCCeEEEEeccccccc
Confidence            455677 89999999999999   8888776532    22   4689999999999964

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.23  E-value=1e-06  Score=54.37  Aligned_cols=50  Identities=10%  Similarity=0.003  Sum_probs=38.3

Q ss_pred             cCCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCC--CeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENV-SRWLKDLGDHADSN--IVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~--~~~~lvgnK~Dl~~~~   59 (78)
                      +++|++++|+|++.. ++... ..|+..+.+..+.+  .|+++|+||+|+.+.+
T Consensus       118 ~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          118 KTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             CEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             CCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence            589999999999764 45554 57888887664433  6999999999997544

>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=98.23  E-value=1e-06  Score=57.33  Aligned_cols=53  Identities=17%  Similarity=0.112  Sum_probs=42.6

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++ +++|++++|+|.++..++.....|+..+....  ..|+++|+||+|+.+...
T Consensus        94 ~~~-~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~  146 (403)
T 3sjy_A           94 SGA-ALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEE  146 (403)
T ss_dssp             HHH-TTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHH
T ss_pred             HHH-hhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHH
Confidence            456 89999999999999888888888887766543  258999999999976543

>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=98.22  E-value=3.9e-07  Score=59.92  Aligned_cols=52  Identities=21%  Similarity=0.107  Sum_probs=39.5

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC----CC-CeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD----SN-IVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~----~~-~~~~lvgnK~Dl~~   57 (78)
                      ..++ +.+|++|+|+|.++ .+|+++..|..+.+++..    .+ .|+++++||+|+.+
T Consensus       102 ~~~~-~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A          102 ITGA-SQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             HHTS-SCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             Hhhh-hhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence            3567 89999999999999 899977666555544331    23 36899999999976

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.22  E-value=1.1e-06  Score=54.11  Aligned_cols=48  Identities=4%  Similarity=0.002  Sum_probs=37.2

Q ss_pred             CCcEEEEEEECCChhhHHHH-HHHHHHHhhhcCCC--CeEEEEeeCCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENV-SRWLKDLGDHADSN--IVIMMIGNKTDLKHL   58 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~--~~~~lvgnK~Dl~~~   58 (78)
                      ++|++++|+++++.. +... ..|++.+.+..+.+  .|+++|+||+|+.+.
T Consensus       116 ~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          116 TIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             EECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             CCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence            789999999998765 5544 57888887765443  499999999999643

>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=98.21  E-value=2.3e-06  Score=57.27  Aligned_cols=48  Identities=19%  Similarity=0.108  Sum_probs=37.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..|+ +++|++++|+|.+++.+++...-| +.+     .+.|+++|+||+|+.+.
T Consensus       318 ~~~~-~~aD~vl~VvD~s~~~s~~~~~il-~~l-----~~~piivV~NK~DL~~~  365 (482)
T 1xzp_A          318 LQEI-EKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEK  365 (482)
T ss_dssp             HHHH-HHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCC
T ss_pred             HHHh-hcccEEEEEecCCCCCCHHHHHHH-HHh-----cCCCEEEEEECcccccc
Confidence            3577 899999999999999888764332 332     36799999999999754

>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=98.17  E-value=1.9e-06  Score=56.60  Aligned_cols=47  Identities=23%  Similarity=0.302  Sum_probs=34.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..|+ ++||++++|+|.++.-+...  +..|+..      .+.|+++|+||+|+.+
T Consensus        76 ~~~~-~~ad~il~V~D~~~~~~~~d~~i~~~l~~------~~~p~ilv~NK~D~~~  124 (439)
T 1mky_A           76 LNMI-READLVLFVVDGKRGITKEDESLADFLRK------STVDTILVANKAENLR  124 (439)
T ss_dssp             HHHH-TTCSEEEEEEETTTCCCHHHHHHHHHHHH------HTCCEEEEEESCCSHH
T ss_pred             HHHH-HhCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCCEEEEEeCCCCcc
Confidence            4578 99999999999987655432  3334322      3579999999999853

>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=98.17  E-value=1.4e-06  Score=55.79  Aligned_cols=57  Identities=16%  Similarity=0.014  Sum_probs=40.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ...|+ ++++++|+++|.++.+...  ..|...++...+.+.|+++|+||+|+.+.....
T Consensus       166 ~~~~i-~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~  222 (360)
T 3t34_A          166 VRSYI-EKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTKIDLMDKGTDA  222 (360)
T ss_dssp             HHHHH-HSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEECGGGCCTTCCS
T ss_pred             HHHHh-hcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeCCccCCCcccH
Confidence            45788 9999999999876654332  345555555555568999999999997654433

>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=98.16  E-value=7.2e-07  Score=59.24  Aligned_cols=53  Identities=17%  Similarity=0.043  Sum_probs=35.5

Q ss_pred             ccchhcCCcEEEEEEECCCh---hhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKS---TTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      ..++ +.+|++|+|+|.++.   +||+...+|.+.+......++| +++++||+|+.+
T Consensus       139 ~~~~-~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~  195 (467)
T 1r5b_A          139 INGA-SQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPS  195 (467)
T ss_dssp             ---T-TSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             Hhhc-ccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCC
Confidence            3466 899999999999986   4565444444444322224576 999999999954

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.16  E-value=2.1e-06  Score=56.41  Aligned_cols=50  Identities=10%  Similarity=0.029  Sum_probs=35.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ ++||++++|+|.++..++..  .|+....+  ..+.|+++|+||+|+.+.
T Consensus        77 ~~~~-~~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           77 EIAM-DEADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             HHHH-HHCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC---
T ss_pred             HHHH-HhCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCccc
Confidence            4578 99999999999998766554  33333322  256899999999998653

>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=98.11  E-value=7.5e-06  Score=56.14  Aligned_cols=50  Identities=26%  Similarity=0.372  Sum_probs=41.2

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +.+|++++|+|.++..+......|.....    .++|+++++||+|+.+.+
T Consensus        92 r~l-~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~  141 (600)
T 2ywe_A           92 RAL-AACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD  141 (600)
T ss_dssp             HHH-HTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC
T ss_pred             HHH-HhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC
Confidence            456 89999999999999888888888865543    468999999999997643

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.10  E-value=3.7e-06  Score=57.57  Aligned_cols=50  Identities=20%  Similarity=0.257  Sum_probs=40.9

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++ +.+|++++|+|.++..++.....|.....    .++|+++++||+|+.+.+
T Consensus        90 ~~l-~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~  139 (599)
T 3cb4_D           90 RSL-AACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD  139 (599)
T ss_dssp             HHH-HHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC
T ss_pred             HHH-HHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc
Confidence            456 89999999999999888777777865543    468999999999997643

>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=98.08  E-value=3.7e-07  Score=58.90  Aligned_cols=45  Identities=13%  Similarity=0.222  Sum_probs=32.2

Q ss_pred             EEEEECCC-hhhHHHHH-HHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356           15 LLVYDVTK-STTFENVS-RWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus        15 ilv~d~~~-~~s~~~~~-~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++|++++ ..++..+. .|+..+    ..++|+++|+||+|+...+++..
T Consensus       148 ~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~ev~~  194 (361)
T 2qag_A          148 CCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKERER  194 (361)
T ss_dssp             EEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHHHHH
T ss_pred             EEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHHHHH
Confidence            48888887 67777774 555544    36789999999999987665543

>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=98.05  E-value=1.9e-06  Score=52.08  Aligned_cols=55  Identities=13%  Similarity=0.007  Sum_probs=32.6

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCCCCch
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .++ +++|++++|+|+++..+-  ...|+..+.+..+  ...|+++|+||+|+.+.+.+.
T Consensus       108 ~~~-~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~  164 (239)
T 3lxx_A          108 LTS-PGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLH  164 (239)
T ss_dssp             HTT-TCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC------
T ss_pred             hcC-CCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHH
Confidence            456 789999999999765442  1233333332211  235899999999986554443

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.04  E-value=9e-07  Score=57.27  Aligned_cols=48  Identities=19%  Similarity=0.223  Sum_probs=38.2

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.++ ++++++++|+|++++++     .|..++.+.. .+.|+++|+||+||.+.
T Consensus        66 ~~~~-~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~~  113 (369)
T 3ec1_A           66 HRIG-ESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLPR  113 (369)
T ss_dssp             HHHH-HHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSCT
T ss_pred             HHhh-ccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCCC
Confidence            4567 88999999999999874     4666666555 47899999999999654

>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=98.03  E-value=9.7e-06  Score=49.45  Aligned_cols=52  Identities=19%  Similarity=0.205  Sum_probs=31.8

Q ss_pred             chhcCCcEEEEEEECCChhhHH-HHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFE-NVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~-~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ++ +++|++++|+|.++..... .+..|+...........++++++||+|+.+.
T Consensus       102 ~~-~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~  154 (260)
T 2xtp_A          102 SA-PGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG  154 (260)
T ss_dssp             HT-TCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC
T ss_pred             cC-CCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCc
Confidence            67 8999999999998733322 2334444332211123456666669999753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.02  E-value=1.2e-06  Score=59.38  Aligned_cols=58  Identities=17%  Similarity=0.185  Sum_probs=43.8

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      .++ +++|++++|+|.++....+....|++.+..   .+.|+++|+||+|+.+..++.+..+
T Consensus       184 ~~l-~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvilVlNK~Dl~~~~el~~~~~  241 (550)
T 2qpt_A          184 WFA-ERVDLIILLFDAHKLEISDEFSEAIGALRG---HEDKIRVVLNKADMVETQQLMRVYG  241 (550)
T ss_dssp             HHH-HHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEEEEECGGGSCHHHHHHHHH
T ss_pred             HHH-HhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEEEEECCCccCHHHHHHHHH
Confidence            466 889999999999887666677777766653   3478999999999976555544433

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.98  E-value=1.8e-05  Score=53.51  Aligned_cols=50  Identities=20%  Similarity=0.054  Sum_probs=39.2

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++..+......|. .+..   .++|+++++||+|+.+.
T Consensus       100 ~~~l-~~aD~allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A          100 YRTL-TAVDSALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             HHGG-GGCSEEEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECTTSCCS
T ss_pred             HHHH-HhCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCCCCccc
Confidence            4577 9999999999999987777766663 3332   46899999999999654

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=97.94  E-value=8.2e-06  Score=50.45  Aligned_cols=53  Identities=11%  Similarity=0.026  Sum_probs=37.7

Q ss_pred             ccchhcCCcEEE-EEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGAL-LVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~i-lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|+ +++++++ +|+|.++.-+......|...+.   ..+.|+++|+||+|+.+...
T Consensus       156 ~~~~-~~~~~~il~v~d~~~~~~~~~~~~~~~~~~---~~~~~~i~V~NK~Dl~~~~~  209 (299)
T 2aka_B          156 MQFV-TKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHH-TSTTEEEEEEEESSSCGGGCHHHHHHHHHC---TTCSSEEEEEECGGGSCTTC
T ss_pred             HHHH-cCCCeEEEEEecCCcchhhhHHHHHHHHhC---CCCCeEEEEEEccccCCCCc
Confidence            4578 8898887 6899987655444444555543   24689999999999976544

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=97.87  E-value=6.8e-06  Score=55.68  Aligned_cols=51  Identities=16%  Similarity=0.097  Sum_probs=37.2

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..++ +.+|++++|+|.++.........|. .+.   ..++|+++++||+|+.+
T Consensus        68 ~~~~~~-~~aD~vILVVDa~dg~~~qt~e~l~-~~~---~~~vPiIVViNKiDl~~  118 (537)
T 3izy_P           68 MRARGT-QVTDIVILVVAADDGVMKQTVESIQ-HAK---DAHVPIVLAINKCDKAE  118 (537)
T ss_dssp             SBBSSS-BSBSSCEEECBSSSCCCHHHHHHHH-HHH---TTTCCEEECCBSGGGTT
T ss_pred             HHHHHH-ccCCEEEEEEECCCCccHHHHHHHH-HHH---HcCCcEEEEEecccccc
Confidence            456788 9999999999999865544433332 222   35689999999999964

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=97.85  E-value=1.1e-05  Score=57.10  Aligned_cols=48  Identities=27%  Similarity=0.293  Sum_probs=39.5

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ..++ +.+|++|+|+|.++..++.....|.....    .++|+++++||+|+.
T Consensus       116 ~~~l-~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          116 TAAL-RVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             HHHH-HTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             HHHH-HhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            4577 99999999999999988888777754332    468999999999985

>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=97.83  E-value=8.1e-05  Score=48.47  Aligned_cols=45  Identities=24%  Similarity=0.160  Sum_probs=32.3

Q ss_pred             cCCcEEEEEEECCC----hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTK----STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..+|++++|+|.++    +.+++.+..|    ...  ...|+++++||+|+.+..
T Consensus       103 ~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~l--~~~~iivv~NK~Dl~~~~  151 (408)
T 1s0u_A          103 SLMDGAILVIAANEPCPQPQTKEHLMAL----EIL--GIDKIIIVQNKIDLVDEK  151 (408)
T ss_dssp             SCCSEEEEEEETTSCSSCHHHHHHHHHH----HHT--TCCCEEEEEECTTSSCTT
T ss_pred             hhCCEEEEEEECCCCCCCchhHHHHHHH----HHc--CCCeEEEEEEccCCCCHH
Confidence            45699999999994    5667666544    211  224799999999997644

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.83  E-value=1.4e-05  Score=55.42  Aligned_cols=51  Identities=12%  Similarity=0.138  Sum_probs=40.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..|+ +++|++++|+|.++..+......|...+..   .+.|+++|+||+|+...
T Consensus       195 ~~~i-~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          195 LGYV-NNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             THHH-HSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGGGG
T ss_pred             HHHH-HhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccccc
Confidence            4678 999999999999998888887777655543   35689999999998643

>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=97.83  E-value=9.2e-06  Score=50.11  Aligned_cols=44  Identities=20%  Similarity=-0.001  Sum_probs=32.1

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++|++++|+|.++.+   ....|..++.+.  ...|+++|+||+|+.+
T Consensus        80 ~~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~  123 (271)
T 3k53_A           80 GNADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNIILVLNKFDLLK  123 (271)
T ss_dssp             TCCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSEEEEEECHHHHH
T ss_pred             cCCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCEEEEEEChhcCc
Confidence            4799999999998864   334455555443  2389999999999854

>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=97.82  E-value=4.5e-05  Score=50.74  Aligned_cols=54  Identities=17%  Similarity=-0.007  Sum_probs=31.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHH--HHHHH---HHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENV--SRWLK---DLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~--~~~~~---~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..++ +++|++++|+|.++..++..+  ..+..   .+.... ...|+++|+||+|+.+.+
T Consensus       129 ~~~~-~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~~~~iIvviNK~Dl~~~~  187 (483)
T 3p26_A          129 IMGI-SQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-GIHNLIIAMNKMDNVDWS  187 (483)
T ss_dssp             HHHH-TTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-TCCCEEEEEECGGGGTTC
T ss_pred             HHhh-hhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-CCCcEEEEEECcCcccch
Confidence            3567 899999999999997655432  11111   111111 234699999999997643

>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=97.82  E-value=4.7e-05  Score=51.27  Aligned_cols=48  Identities=15%  Similarity=0.156  Sum_probs=34.8

Q ss_pred             ccccchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++..++ +.+|++++|+|.++   +.+.+.+.    .+..   .++|+++++||+|+.+
T Consensus        67 ~~~~~~-~~aD~aILVVda~~g~~~qT~e~l~----~~~~---~~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           67 MRARGA-QATDIVVLVVAADDGVMPQTIEAIQ----HAKA---AQVPVVVAVNKIDKPE  117 (501)
T ss_dssp             SBCSSS-BSCSSEEEEEETTTBSCTTTHHHHH----HHHH---TTCCEEEEEECSSSST
T ss_pred             HHHHHH-hhCCEEEEEeecccCccHHHHHHHH----HHHh---cCceEEEEEEeccccc
Confidence            345567 89999999999988   45554432    2221   4688999999999964

>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=97.81  E-value=1.2e-05  Score=53.06  Aligned_cols=51  Identities=8%  Similarity=0.019  Sum_probs=32.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ...++ ++||++++|+|.++.  +.....|+....+.  .+.|+++|+||+|+.+.
T Consensus        96 ~~~~~-~~ad~il~VvD~~~~--~~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~  146 (456)
T 4dcu_A           96 AEIAM-DEADVIIFMVNGREG--VTAADEEVAKILYR--TKKPVVLAVNKLDNTEM  146 (456)
T ss_dssp             HHHHH-HHCSEEEEEEESSSC--SCHHHHHHHHHHTT--CCSCEEEEEECC-----
T ss_pred             HHhhH-hhCCEEEEEEeCCCC--CChHHHHHHHHHHH--cCCCEEEEEECccchhh
Confidence            34677 899999999997663  33333344443332  56899999999998643

>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=97.81  E-value=1.1e-05  Score=50.49  Aligned_cols=44  Identities=16%  Similarity=0.011  Sum_probs=35.1

Q ss_pred             chhcCCcEEEEEEECCChhhHH--HHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFE--NVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .. ..+|+++.|.|..++.+..  .+.+|.        .+.|.++|.||+||.+.
T Consensus        20 ~l-~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~   65 (282)
T 1puj_A           20 KL-KLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADA   65 (282)
T ss_dssp             HG-GGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCH
T ss_pred             HH-hhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCH
Confidence            45 7999999999999998765  344443        46899999999999764

>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=97.78  E-value=6.1e-05  Score=49.45  Aligned_cols=49  Identities=16%  Similarity=-0.023  Sum_probs=34.4

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++ +++|++++|+|.++... .....|+..+...  ...|+++|+||+|+.+
T Consensus       123 ~~~-~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~--~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          123 TGA-STCDLAIILVDARYGVQ-TQTRRHSYIASLL--GIKHIVVAINKMDLNG  171 (434)
T ss_dssp             HHH-TTCSEEEEEEETTTCSC-HHHHHHHHHHHHT--TCCEEEEEEECTTTTT
T ss_pred             HHH-hhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCeEEEEEEcCcCCc
Confidence            457 89999999999988542 3334454444432  2236999999999975

>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=97.74  E-value=3.9e-05  Score=51.84  Aligned_cols=51  Identities=16%  Similarity=0.056  Sum_probs=35.1

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..++ +.+|++|+|+|.++...- ....++..+.   ..++|+++++||+|+.+..
T Consensus       100 ~~~l-~~aD~~IlVvDa~~g~~~-~t~~~~~~~~---~~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A          100 YRTL-TAVDCCLMVIDAAKGVED-RTRKLMEVTR---LRDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             HHGG-GGCSEEEEEEETTTCSCH-HHHHHHHHHT---TTTCCEEEEEECTTSCCSC
T ss_pred             HHHH-HHCCEEEEEEeCCccchH-HHHHHHHHHH---HcCCCEEEEEcCcCCcccc
Confidence            3577 999999999999875321 1122222222   2468999999999997643

>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=97.73  E-value=4.5e-05  Score=52.92  Aligned_cols=50  Identities=18%  Similarity=0.260  Sum_probs=40.1

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++..++.....|.. +..   .++|+++++||+|+...
T Consensus        95 ~~~l-~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           95 ERSM-RVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             HHHH-HHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             HHHH-HHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCcccC
Confidence            3567 89999999999999888887777754 332   46899999999999754

>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=97.72  E-value=2.9e-05  Score=50.48  Aligned_cols=48  Identities=17%  Similarity=0.151  Sum_probs=36.0

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      .++ +++|++|+|+|.++... .....|+..+..   .++| +++++||+|+.+
T Consensus        94 ~~~-~~aD~~ilVvda~~g~~-~qt~~~l~~~~~---~~ip~iivviNK~Dl~~  142 (405)
T 2c78_A           94 TGA-AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             HHH-TTCSSEEEEEETTTCCC-HHHHHHHHHHHH---TTCCCEEEEEECGGGCC
T ss_pred             HHH-HHCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEECccccC
Confidence            467 89999999999988653 344556555544   3577 899999999974

>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=97.70  E-value=5.3e-05  Score=47.62  Aligned_cols=48  Identities=13%  Similarity=0.093  Sum_probs=34.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..++ +.+|++++|+|.++   +.....|+.....  ..+.|+++++||+|+.+
T Consensus        83 ~~~l-~~~D~vl~Vvd~~~---~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           83 SSSI-GDVELVIFVVEGTR---WTPDDEMVLNKLR--EGKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             TSCC-CCEEEEEEEEETTC---CCHHHHHHHHHHH--SSSSCEEEEEESTTTCC
T ss_pred             HHHH-hcCCEEEEEEeCCC---CCHHHHHHHHHHH--hcCCCEEEEEECcccCc
Confidence            4567 89999999999977   3334345433322  24689999999999976

>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=97.68  E-value=7.2e-05  Score=48.60  Aligned_cols=49  Identities=12%  Similarity=0.031  Sum_probs=34.4

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      ..++ +.+|++|+|+|.++.........| ..+..   .++| +++++||+|+.+
T Consensus        84 ~~~~-~~aD~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           84 ITGT-APLDGCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVNKADAVQ  133 (397)
T ss_dssp             HHTS-SCCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCS
T ss_pred             HhhH-hhCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEECcccCC
Confidence            3467 899999999999985433333333 33333   3577 789999999974

>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=97.68  E-value=6.3e-05  Score=49.42  Aligned_cols=51  Identities=20%  Similarity=0.079  Sum_probs=37.0

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      .++ +.++++++++|.++..+.... .+...+.+   .+.|+++|+||+|+.+.+.
T Consensus       259 ~~i-~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~  309 (439)
T 1mky_A          259 DSI-EKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHRE  309 (439)
T ss_dssp             HHH-HHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGG
T ss_pred             HHH-hhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchh
Confidence            356 889999999999987766542 22233332   4689999999999976554

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.67  E-value=2.4e-05  Score=51.59  Aligned_cols=52  Identities=19%  Similarity=0.073  Sum_probs=32.2

Q ss_pred             cchhcCCcEEEEEEECCChh---hHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKST---TFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~---s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      .++ +++|++++|+|.++..   +|+...++.+.+......++| +++++||+|+.+
T Consensus       114 ~~~-~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7          114 GGA-SQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPT  169 (439)
T ss_pred             hhH-hhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcc
Confidence            456 8999999999998853   222111222222211123456 899999999953

>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=97.66  E-value=1.2e-05  Score=53.19  Aligned_cols=49  Identities=12%  Similarity=-0.047  Sum_probs=32.8

Q ss_pred             cchhcCCcEEEEEEECCCh---hhHH---HHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKS---TTFE---NVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~---~s~~---~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      .++ +++|++|+|+|.++.   .||+   ....+...+..   .++| +++++||+|+.+
T Consensus       104 ~~~-~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A          104 TGT-SQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             HSS-SCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGT
T ss_pred             hhh-hhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEcccccc
Confidence            467 899999999999875   2442   23222222222   3454 999999999963

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.64  E-value=7.7e-05  Score=51.77  Aligned_cols=50  Identities=18%  Similarity=0.153  Sum_probs=39.4

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++++|+|.++..+......|.. +.+   .+.|+++|+||+|+...
T Consensus        93 ~~~l-~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           93 ERSL-RVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             HHHH-HHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTTC
T ss_pred             HHHH-HHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCcccc
Confidence            3567 89999999999999888777666643 333   36899999999999764

>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=97.63  E-value=7.6e-05  Score=49.79  Aligned_cols=46  Identities=26%  Similarity=0.131  Sum_probs=34.2

Q ss_pred             cchhcCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +++|++++|+|.++   +.+++.+.    .+..   .++|.++++||+|+.+.
T Consensus        92 ~~~-~~aD~~ilVvda~~g~~~qt~e~l~----~~~~---~~ip~IvviNK~Dl~~~  140 (482)
T 1wb1_A           92 SAA-DIIDLALIVVDAKEGPKTQTGEHML----ILDH---FNIPIIVVITKSDNAGT  140 (482)
T ss_dssp             HHT-TSCCEEEEEEETTTCSCHHHHHHHH----HHHH---TTCCBCEEEECTTSSCH
T ss_pred             HHH-hhCCEEEEEEecCCCccHHHHHHHH----HHHH---cCCCEEEEEECCCcccc
Confidence            456 89999999999988   56665543    2222   34778999999999753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.63  E-value=2.8e-05  Score=53.34  Aligned_cols=54  Identities=15%  Similarity=0.009  Sum_probs=32.8

Q ss_pred             ccchhcCCcEEEEEEECCChh---hHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKST---TFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~---s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +++|++|+|+|.++..   +|....++...+..... ...|+++|+||+|+.+.
T Consensus       263 ~~~~-~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~  320 (611)
T 3izq_1          263 IMGI-SQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDW  320 (611)
T ss_dssp             TTTS-SCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTT
T ss_pred             HHHH-hhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccch
Confidence            3567 8999999999998742   11111122222211111 23469999999999763

>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=97.61  E-value=3e-05  Score=48.32  Aligned_cols=53  Identities=13%  Similarity=0.108  Sum_probs=34.3

Q ss_pred             ccchhcCCcEEEEEEECCChhhH-HHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTF-ENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|+ +++|++++|+|.++.... .....+...+.   ..+.|+++|+||+|+.+...
T Consensus       162 ~~~~-~~~d~iilvvd~~~~~~~~~~~~~i~~~~~---~~~~~~i~v~NK~Dl~~~~~  215 (315)
T 1jwy_B          162 MAYI-KKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITKLDLMDKGT  215 (315)
T ss_dssp             HHHH-HSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEECTTSSCSSC
T ss_pred             HHHH-cCCCeEEEEEEecCcchhhhHHHHHHHHhC---CCCCcEEEEEcCcccCCcch
Confidence            4577 899999999997544311 11112333332   24689999999999975544

>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=97.60  E-value=3.3e-05  Score=50.93  Aligned_cols=56  Identities=14%  Similarity=0.139  Sum_probs=39.6

Q ss_pred             ccccchhcCCcEEEEEEECCCh-hhHHHH-HHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKS-TTFENV-SRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~-~s~~~~-~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +.+.++ +++++.+++|.++.. .+++.+ ..|+..+.    .++|+++|+||+|+...+.+.
T Consensus       129 IaRal~-~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~ev~  186 (418)
T 2qag_C          129 VNRRQM-PDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPEECQ  186 (418)
T ss_dssp             -CCCCC-CCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHHHHH
T ss_pred             HHHHhc-cCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHHHHH
Confidence            456678 888887888877765 577776 36777664    368999999999987655444

>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=97.59  E-value=0.00011  Score=51.15  Aligned_cols=50  Identities=18%  Similarity=0.175  Sum_probs=37.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++ +.+|++|+|+|.++..+......|. .+..   .++|+++++||+|+...
T Consensus       100 ~~~l-~~aD~aIlVvDa~~gv~~qt~~~~~-~~~~---~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7          100 ERSM-RVLDGAVMVYCAVGGVQPQSETVWR-QANK---YKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             HHHH-HHCCEEEEEEeCCCCCcHHHHHHHH-HHHH---cCCCEEEEEeCCCcccc
Confidence            4567 8999999999999876665555553 2222   46899999999998754

>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=97.53  E-value=0.00015  Score=47.15  Aligned_cols=45  Identities=22%  Similarity=0.149  Sum_probs=31.9

Q ss_pred             cCCcEEEEEEECCC----hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTK----STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..+|++++|+|.++    +.+++.+..|.    ..  ...|+++++||+|+.+..
T Consensus       105 ~~~D~~ilVvda~~g~~~~qt~e~l~~~~----~~--~~~~iivviNK~Dl~~~~  153 (410)
T 1kk1_A          105 SLMDGAILVIAANEPCPRPQTREHLMALQ----II--GQKNIIIAQNKIELVDKE  153 (410)
T ss_dssp             GGCSEEEEEEETTSCSSCHHHHHHHHHHH----HH--TCCCEEEEEECGGGSCHH
T ss_pred             hhCCEEEEEEECCCCCCChhHHHHHHHHH----Hc--CCCcEEEEEECccCCCHH
Confidence            45699999999984    55666655442    22  225799999999997643

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.53  E-value=5.2e-05  Score=49.08  Aligned_cols=48  Identities=8%  Similarity=-0.062  Sum_probs=34.8

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeE-EEEee-CCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVI-MMIGN-KTDLKHLP   59 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~lvgn-K~Dl~~~~   59 (78)
                      .++ +.+|++++|+|  +...+...+.|...+...   ++|. +++.| |+|+ +..
T Consensus        79 ~~~-~~aD~ailVvd--~~g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~  128 (370)
T 2elf_A           79 TAL-NISDIAVLCIP--PQGLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMH  128 (370)
T ss_dssp             HHH-HTCSEEEEEEC--TTCCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHH
T ss_pred             HHH-HHCCEEEEEEc--CCCCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHH
Confidence            346 79999999999  555667777776666543   3565 78888 9999 543

>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=97.38  E-value=0.00022  Score=46.94  Aligned_cols=49  Identities=18%  Similarity=0.149  Sum_probs=39.5

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC--CCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHAD--SNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++.++.++|++ +++++.+..|..++.....  ...|.++++||+|+...
T Consensus       234 era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~  284 (416)
T 1udx_A          234 ARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE  284 (416)
T ss_dssp             TSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH
T ss_pred             HHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH
Confidence            3689999999998 7788888888888766542  35788999999999764

>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=97.31  E-value=0.00028  Score=51.96  Aligned_cols=48  Identities=19%  Similarity=0.103  Sum_probs=34.9

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      .++ +.+|++|+|+|.++.... ....|+..+...   ++| +++++||+|+.+
T Consensus       378 ~ga-s~AD~aILVVDAtdGv~~-QTrEhL~ll~~l---gIP~IIVVINKiDLv~  426 (1289)
T 3avx_A          378 TGA-AQMDGAILVVAATDGPMP-QTREHILLGRQV---GVPYIIVFLNKCDMVD  426 (1289)
T ss_dssp             HTS-CCCSEEEEEEETTTCSCT-THHHHHHHHHHH---TCSCEEEEEECCTTCC
T ss_pred             HHH-hhCCEEEEEEcCCccCcH-HHHHHHHHHHHc---CCCeEEEEEeeccccc
Confidence            467 899999999999985432 334454555432   467 789999999975

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.25  E-value=0.00062  Score=43.23  Aligned_cols=47  Identities=19%  Similarity=0.177  Sum_probs=34.6

Q ss_pred             cCCcEEEEEEECCChhh-HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTT-FENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s-~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++|.+++|.|..++.+ ...+..++..+.   ..++|.++|.||+||.+.
T Consensus        85 anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~~  132 (307)
T 1t9h_A           85 CNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIED  132 (307)
T ss_dssp             ECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCCC
T ss_pred             HhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCch
Confidence            68999999999987653 444455544333   256888999999999765

>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=97.11  E-value=0.00038  Score=45.52  Aligned_cols=18  Identities=28%  Similarity=0.135  Sum_probs=15.9

Q ss_pred             cchhcCCcEEEEEEECCCh
Q 038356            5 AYYNRGALGALLVYDVTKS   23 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~   23 (78)
                      .++ +++|++++|+|.++.
T Consensus        97 ~~i-~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           97 DDL-RMASALIHVVDATGK  114 (397)
T ss_dssp             CSS-TTCSEEEEEEETTCC
T ss_pred             HHH-hcCCEEEEEEecccc
Confidence            457 999999999999886

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.04  E-value=0.00051  Score=42.34  Aligned_cols=46  Identities=13%  Similarity=0.034  Sum_probs=30.2

Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356           10 GALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus        10 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .+|+++++.+.++......-..+++.+..    .+|+++|+||+|+....
T Consensus       115 r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A          115 RVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             CCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHH
T ss_pred             ceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHH
Confidence            37788888876653322222445555543    68999999999986443

>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=96.93  E-value=0.00056  Score=43.70  Aligned_cols=54  Identities=17%  Similarity=0.049  Sum_probs=31.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|+ ++++.+++++...+. .+... .|...++...+.+.|+++|+||+|+.+...
T Consensus       161 ~~~~-~~~~~iiL~v~~a~~-~~~~~-~~~~i~~~~~~~~~~~i~V~NK~Dl~~~~~  214 (353)
T 2x2e_A          161 MQFV-TKENCLILAVSPANS-DLANS-DALKVAKEVDPQGQRTIGVITKLDLMDEGT  214 (353)
T ss_dssp             HHHH-TSTTEEEEEEEETTS-CGGGC-HHHHHHHHHCTTCTTEEEEEECGGGSCTTC
T ss_pred             HHHH-cCCCeEEEEEecCCC-ccchh-HHHHHHHHhCcCCCceEEEeccccccCcch
Confidence            4577 788877776643332 12211 222223333345789999999999975443

>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=96.87  E-value=0.0017  Score=44.97  Aligned_cols=48  Identities=15%  Similarity=0.054  Sum_probs=34.9

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ..++ +.+|++++|+|.++.-.... ..++..+..   .++|+++++||+|+.
T Consensus        92 ~~~l-~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           92 RGAL-EAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             HHHH-HHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             HHHH-hhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            3567 89999999999877544332 344444443   358999999999987

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.80  E-value=0.0029  Score=41.03  Aligned_cols=47  Identities=15%  Similarity=0.181  Sum_probs=32.0

Q ss_pred             cCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .++|.+++|.+.. +. +...+..++.....   .+.|.+||.||+||.+..
T Consensus       129 anvD~v~iv~a~~-P~~~~~~i~r~L~~a~~---~~~~~iivlNK~DL~~~~  176 (358)
T 2rcn_A          129 ANIDQIVIVSAIL-PELSLNIIDRYLVGCET---LQVEPLIVLNKIDLLDDE  176 (358)
T ss_dssp             ECCCEEEEEEEST-TTCCHHHHHHHHHHHHH---HTCEEEEEEECGGGCCHH
T ss_pred             hcCCEEEEEEeCC-CCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCch
Confidence            5889999987764 54 44445555544332   356779999999997643

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=96.77  E-value=0.00015  Score=44.87  Aligned_cols=44  Identities=14%  Similarity=0.081  Sum_probs=32.9

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .. .++|.++.|.|..++.+..+.     .+. ..  +.|.++|.||+||.+.
T Consensus        18 ~l-~~~D~vl~VvDar~P~~~~~~-----~l~-ll--~k~~iivlNK~DL~~~   61 (262)
T 3cnl_A           18 LL-RLVNTVVEVRDARAPFATSAY-----GVD-FS--RKETIILLNKVDIADE   61 (262)
T ss_dssp             HH-TTCSEEEEEEETTSTTTTSCT-----TSC-CT--TSEEEEEEECGGGSCH
T ss_pred             HH-hhCCEEEEEeeCCCCCcCcCh-----HHH-hc--CCCcEEEEECccCCCH
Confidence            45 799999999999988776431     111 11  6899999999999764

>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=96.61  E-value=0.0032  Score=36.66  Aligned_cols=43  Identities=21%  Similarity=0.375  Sum_probs=31.2

Q ss_pred             cCCcEEEEEEECCChhhHHH--HHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFEN--VSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.++++++++|+++..++..  +..|...      .+.|+++++||+|+..
T Consensus       107 ~~~~~~~~v~d~~~~~~~~~~~~~~~~~~------~~~~~~~v~nK~D~~s  151 (210)
T 1pui_A          107 QSLQGLVVLMDIRHPLKDLDQQMIEWAVD------SNIAVLVLLTKADKLA  151 (210)
T ss_dssp             TTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSC
T ss_pred             hcccEEEEEEECCCCCchhHHHHHHHHHH------cCCCeEEEEecccCCC
Confidence            36899999999998766532  3344321      4588999999999864

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=96.47  E-value=7.2e-05  Score=51.12  Aligned_cols=46  Identities=33%  Similarity=0.168  Sum_probs=24.9

Q ss_pred             ccchhcCCcEEEEEEECCCh----------hhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            4 SAYYNRGALGALLVYDVTKS----------TTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      ..++ +++|++|+|+|.++.          .+.+.+    ..+..   .++| +++|+||+|+.+
T Consensus       273 ~~~~-~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l----~~~~~---lgip~iIvviNKiDl~~  329 (592)
T 3mca_A          273 IAGA-SSADFAVLVVDSSQNNFERGFLENGQTREHA----YLLRA---LGISEIVVSVNKLDLMS  329 (592)
T ss_dssp             CC--------CCSEEEEEECCSSTTSCSCSSHHHHH----HHHHH---SSCCCEEEEEECGGGGT
T ss_pred             HHHH-hhCCEEEEEEECCCCccccccccchHHHHHH----HHHHH---cCCCeEEEEEecccccc
Confidence            3567 899999999999853          333322    22222   2354 899999999965

>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=95.56  E-value=0.0056  Score=36.91  Aligned_cols=48  Identities=13%  Similarity=-0.074  Sum_probs=27.3

Q ss_pred             cCCcEEEEEEECCC---hhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTK---STTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .. +.++.+.|.+.   ..++.....+......  ..+.|+++|+||+|+...+
T Consensus       137 ~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          137 PY-PLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             SS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCCHH
T ss_pred             hh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc--ccCCCeEEEEecccccccc
Confidence            45 67777777643   3333332222211111  1457999999999997644

>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=95.40  E-value=0.00086  Score=42.94  Aligned_cols=42  Identities=12%  Similarity=0.079  Sum_probs=29.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.+|.+++|+|.+..+.+..+..+        -.+.|.++|.||+|+.+.
T Consensus       191 ~~aD~vl~V~d~~~~~~~~~l~~~--------~~~~p~ivVlNK~Dl~~~  232 (355)
T 3p32_A          191 NMVDTFVLLTLARTGDQLQGIKKG--------VLELADIVVVNKADGEHH  232 (355)
T ss_dssp             TTCSEEEEEEESSTTCTTTTCCTT--------SGGGCSEEEEECCCGGGH
T ss_pred             HhCCEEEEEECCCCCccHHHHHHh--------HhhcCCEEEEECCCCcCh
Confidence            689999999998766554332211        123688999999998654

>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=95.05  E-value=0.0034  Score=39.97  Aligned_cols=45  Identities=11%  Similarity=0.060  Sum_probs=26.5

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +.+|++++|+|.++.+.+..+...   .     .+.|.++|.||+|+.+....
T Consensus       168 ~~aD~vl~Vvd~~~~~~~~~l~~~---~-----~~~p~ivv~NK~Dl~~~~~~  212 (341)
T 2p67_A          168 RMVDCFISLQIAGGGDDLQGIKKG---L-----MEVADLIVINKDDGDNHTNV  212 (341)
T ss_dssp             TTCSEEEEEECC------CCCCHH---H-----HHHCSEEEECCCCTTCHHHH
T ss_pred             HhCCEEEEEEeCCccHHHHHHHHh---h-----hcccCEEEEECCCCCChHHH
Confidence            789999999998765432211110   0     13578999999999764333

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.95  E-value=0.016  Score=33.95  Aligned_cols=41  Identities=17%  Similarity=0.155  Sum_probs=26.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      .++++.++|+|.++...  ....+...      .+.|.++|+||+|+.+
T Consensus       128 ~~~~~~i~vvd~~~~~~--~~~~~~~~------~~~~~iiv~NK~Dl~~  168 (221)
T 2wsm_A          128 LGENYRVVMVSVTEGDD--VVEKHPEI------FRVADLIVINKVALAE  168 (221)
T ss_dssp             CSCSEEEEEEEGGGCTT--HHHHCHHH------HHTCSEEEEECGGGHH
T ss_pred             cccCcEEEEEeCCCcch--hhhhhhhh------hhcCCEEEEecccCCc
Confidence            46788999999876542  11111111      1367899999999854

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=94.61  E-value=0.12  Score=35.03  Aligned_cols=46  Identities=22%  Similarity=0.135  Sum_probs=31.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +-+|++++|.|...----....-| +...+   .++|.+++-||+|....
T Consensus       122 ~~~DgAvlVvda~~GV~~qT~~v~-~~a~~---~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          122 TAVDSALVVIDAAKGVEAQTRKLM-DVCRM---RATPVMTFVNKMDREAL  167 (548)
T ss_dssp             HSCSEEEEEEETTTBSCHHHHHHH-HHHHH---TTCCEEEEEECTTSCCC
T ss_pred             HhcCceEEEeecCCCcccccHHHH-HHHHH---hCCceEEEEecccchhc
Confidence            678999999998763222222345 33333   46899999999998654

>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=94.38  E-value=0.005  Score=38.65  Aligned_cols=19  Identities=21%  Similarity=0.216  Sum_probs=15.4

Q ss_pred             CCCeEEEEeeCCCCCCCCC
Q 038356           42 SNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus        42 ~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ++.|+++|+||.|+...++
T Consensus       154 ~~~~iilV~~K~Dl~~~~e  172 (301)
T 2qnr_A          154 NKVNIVPVIAKADTLTLKE  172 (301)
T ss_dssp             TTSCEEEEECCGGGSCHHH
T ss_pred             hcCCEEEEEEeCCCCCHHH
Confidence            5689999999999976443

>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=93.73  E-value=0.1  Score=37.03  Aligned_cols=49  Identities=14%  Similarity=0.036  Sum_probs=31.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..+|.+++|.|.+..-+-.....+...+.   ..+.|+++|.||+|+.+...
T Consensus       186 ~~aDlIL~VVDAs~~~~~~d~l~ll~~L~---~~g~pvIlVlNKiDlv~~~~  234 (772)
T 3zvr_A          186 KENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITKLDLMDEGT  234 (772)
T ss_dssp             STTEEEEEEEETTSCSSSCHHHHHHHHHC---TTCSSEEEEEECTTSSCTTC
T ss_pred             cCCcEEEEEEcCCCCcchhHHHHHHHHHH---hcCCCEEEEEeCcccCCcch
Confidence            46789999999876432222222333333   34689999999999865433

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.92  E-value=0.078  Score=33.89  Aligned_cols=41  Identities=10%  Similarity=0.072  Sum_probs=23.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ..+|.+++|+|.++.+....+..   .+     -..|.++|.||+|+.+
T Consensus       186 ~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~  226 (349)
T 2www_A          186 DMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDL  226 (349)
T ss_dssp             TTCSEEEEEECCC--------------------CCSCSEEEECCCSGGG
T ss_pred             hhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCC
Confidence            68899999999887543322211   11     2357789999999864

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=92.61  E-value=0.21  Score=34.84  Aligned_cols=45  Identities=20%  Similarity=0.218  Sum_probs=29.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      |-+|++++|.|...==.-....-|. +..+   .++|.+++-||+|...
T Consensus       107 r~~DgavlvVDaveGV~~qT~~v~~-~a~~---~~lp~i~~iNKiDr~~  151 (709)
T 4fn5_A          107 RVLDGAVVVFCGTSGVEPQSETVWR-QANK---YGVPRIVYVNKMDRQG  151 (709)
T ss_dssp             HHCSEEEEEEETTTCSCHHHHHHHH-HHHH---HTCCEEEEEECSSSTT
T ss_pred             HHhCeEEEEEECCCCCchhHHHHHH-HHHH---cCCCeEEEEccccccC
Confidence            5689999999987532211112333 3332   3589999999999754

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=90.01  E-value=1.8  Score=25.35  Aligned_cols=61  Identities=16%  Similarity=0.051  Sum_probs=41.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSG   70 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~   70 (78)
                      ..+|.++++... +..+...+....+.+++...+...+.+|.|+.+-..........+..+.
T Consensus       139 ~~ad~viiv~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~~~~~~~~~~~~~  199 (245)
T 3ea0_A          139 EHLDELCIVTTP-SLQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNSRITSDEIEKVIGR  199 (245)
T ss_dssp             GGCSEEEEEECS-SHHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTTSCHHHHHHHHTS
T ss_pred             HHCCEEEEEecC-cHHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCCCCCHHHHHHHhCC
Confidence            678998888764 5778888888888887654344567899999987554333344444443

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=89.84  E-value=0.18  Score=34.77  Aligned_cols=46  Identities=17%  Similarity=0.158  Sum_probs=29.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +-+|++++|.|...==.-.....|. .+.+   .++|.+++-||+|....
T Consensus        89 ~~~DgavlVVDa~~GV~~qT~~v~~-~a~~---~~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           89 SVLDGAILLISAKDGVQAQTRILFH-ALRK---MGIPTIFFINKIDQNGI  134 (638)
T ss_dssp             TTCSEEECCEESSCTTCSHHHHHHH-HHHH---HTCSCEECCEECCSSSC
T ss_pred             HHhCEEEEEEeCCCCCcHHHHHHHH-HHHH---cCCCeEEEEeccccccC
Confidence            7789999999987521111112342 3333   34788999999997653

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=86.12  E-value=0.84  Score=29.69  Aligned_cols=48  Identities=15%  Similarity=0.122  Sum_probs=30.5

Q ss_pred             cCCcEEEEEEECCChhh-HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTT-FENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s-~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +.||++++|.|.+++-. ++.+..-+....... ...|..++.||.|..+
T Consensus       148 ~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l-~~k~~~i~~nK~d~~g  196 (376)
T 4a9a_A          148 RTCNLLFIILDVNKPLHHKQIIEKELEGVGIRL-NKTPPDILIKKKEKGG  196 (376)
T ss_dssp             HHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEE-TCCCCCEEEEECSSSC
T ss_pred             HhcCccccccccCccHHHHHHHHHHHHHhhHhh-ccCChhhhhhHhhhhh
Confidence            78999999999998743 333333332222111 3457788899999743

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=83.02  E-value=0.27  Score=28.69  Aligned_cols=15  Identities=27%  Similarity=0.302  Sum_probs=11.7

Q ss_pred             CeEEEEeeCCCCCCC
Q 038356           44 IVIMMIGNKTDLKHL   58 (78)
Q Consensus        44 ~~~~lvgnK~Dl~~~   58 (78)
                      .|.++|+||+|+.+.
T Consensus       165 ~~~iiv~NK~Dl~~~  179 (226)
T 2hf9_A          165 TADLIVINKIDLADA  179 (226)
T ss_dssp             TCSEEEEECGGGHHH
T ss_pred             cCCEEEEeccccCch
Confidence            345999999998653

>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=82.89  E-value=1.5  Score=28.37  Aligned_cols=16  Identities=13%  Similarity=-0.147  Sum_probs=14.6

Q ss_pred             chhcCCcEEEEEEECCC
Q 038356            6 YYNRGALGALLVYDVTK   22 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~   22 (78)
                      ++ +++|++++|+|.++
T Consensus        93 ~i-r~ad~il~VvD~~~  108 (363)
T 1jal_A           93 NI-RETDAIGHVVRCFE  108 (363)
T ss_dssp             HH-HTCSEEEEEEECSC
T ss_pred             HH-HhcCeEEEEEecCC
Confidence            47 99999999999987

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=80.86  E-value=5.5  Score=22.54  Aligned_cols=46  Identities=0%  Similarity=-0.174  Sum_probs=32.1

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhc--CCCCeEEEEeeCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHA--DSNIVIMMIGNKTDLK   56 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~~lvgnK~Dl~   56 (78)
                      ..+|.++++...+.. + ..+....+.+++..  .++.++.+|.|+.|-.
T Consensus        96 ~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           96 MVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             HHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             HHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            568888888865444 4 66666666665543  2567889999999854

---

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	78
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	8e-06
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-05
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	4e-05
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	6e-05
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-04
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-04
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	3e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	6e-04
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	0.001
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	0.003
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	0.004

>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 = 39.1 bits (90), Expect = 8e-06
 Identities = 36/49 (73%), Positives = 44/49 (89%)

Query: 9   RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           RGA+GALLVYD+ K  T+ENV RWLK+L DHADSNIVIM++GNK+DL+H
Sbjct: 75  RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRH 123

>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 = 37.9 bits (87), Expect = 2e-05
 Identities = 32/73 (43%), Positives = 44/73 (60%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIF 65
            Y RGA GALLVYD+T+  TF +++ WL+D   H+ SN+VIM+IGNK+DL+         
Sbjct: 71  SYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREE 130

Query: 66  QSLSGLLFKLIFI 78
                    LIF+
Sbjct: 131 GEAFAREHGLIFM 143

>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 = 37.3 bits (85), Expect = 4e-05
 Identities = 10/61 (16%), Positives = 28/61 (45%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIF 65
                +   L+ +D+++  T ++V +  K        N  ++++G K+DL+   +++   
Sbjct: 69  LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVEL 128

Query: 66  Q 66
            
Sbjct: 129 S 129

>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 = 36.9 bits (84), Expect = 6e-05
 Identities = 11/60 (18%), Positives = 23/60 (38%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ 66
                   L+ + V   ++FENV         H       +++G + DL+  P+++    
Sbjct: 71  SYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLA 130

>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 = 35.8 bits (81), Expect = 2e-04
 Identities = 11/42 (26%), Positives = 19/42 (45%)

Query: 16  LVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           + + +    +FENV         H   N  I+++G K DL+ 
Sbjct: 82  ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRD 123

>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 = 35.1 bits (80), Expect = 2e-04
 Identities = 18/45 (40%), Positives = 34/45 (75%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGN 51
           Y RGA+G +LVYD+T   +F+N+  W++++ +HA +++  M++GN
Sbjct: 75  YYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 119

>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 = 34.9 bits (79), Expect = 3e-04
 Identities = 25/51 (49%), Positives = 37/51 (72%)

Query: 7   YNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           Y RGA GAL+VYD+T+ +T+ ++S WL D  +  + N VI++IGNK DL+ 
Sbjct: 73  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEA 123

>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 = 34.0 bits (77), Expect = 6e-04
 Identities = 24/56 (42%), Positives = 40/56 (71%), Gaps = 1/56 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH 57
           I +AYY RGA+G +LVYD+T   TF N+ +W K + +HA+    ++++GNK+D++ 
Sbjct: 67  ITTAYY-RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 121

>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 = 33.4 bits (75), Expect = 0.001
 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 6   YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSMSI 64
           +Y  G  G + V D       +   + L  + +  +  + +I++  NK DL        I
Sbjct: 75  HYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEI 134

Query: 65  FQSL 68
            + L
Sbjct: 135 QEKL 138

>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 = 31.9 bits (71), Expect = 0.003
 Identities = 10/49 (20%), Positives = 21/49 (42%)

Query: 18  YDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ 66
           + V    +F+NV             N+  ++IG + DL+  P +++   
Sbjct: 88  FSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLN 136

>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 = 31.8 bits (71), Expect = 0.004
 Identities = 21/51 (41%), Positives = 35/51 (68%), Gaps = 1/51 (1%)

Query: 2   INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNK 52
           I S+YY RG+ G ++VYDVT   +F  V  WL+++  +A S ++ +++GNK
Sbjct: 71  ITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNK 120

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	78
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.76
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.75
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.75
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.74
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.72
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.72
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.7
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.68
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.67
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.66
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.65
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.65
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.64
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.6
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.6
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.59
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.58
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.58
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.56
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.54
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.53
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.5
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.5
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.48
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.46
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.45
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.44
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.41
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.4
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.27
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.01
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.98
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.9
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.86
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.74
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.71
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.7
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.64
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.62
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.59
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.49
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.37
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.08
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.04
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.82
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.5
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.38
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.31
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.19
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.14
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.08
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	97.06
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.99
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.73
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.65
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	95.46
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	95.43
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.43
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.24
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.49
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.17
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	93.67
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	91.87
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	90.48
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.32
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	85.95
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	85.37
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	85.01
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	83.32
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	81.92
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	81.49
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	80.22

>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=99.77  E-value=2e-19  Score=103.59  Aligned_cols=64  Identities=22%  Similarity=0.264  Sum_probs=54.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|| +++|++++|||+++++||+++..|+.++.... .+++|+++||||+|+.+.++++...+
T Consensus        64 ~~~~~~-~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~  128 (168)
T d2gjsa1          64 LPGHCM-AMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEG  128 (168)
T ss_dssp             CHHHHH-TSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHH
T ss_pred             ecccch-hhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHH
Confidence            567889 99999999999999999999999999997765 36789999999999998888775443

>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=99.76  E-value=3.1e-19  Score=102.12  Aligned_cols=63  Identities=25%  Similarity=0.548  Sum_probs=55.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++.|+ +++|++++|||+++++||+++..|+.++.++. .+++|++|||||+||.++++++....
T Consensus        69 ~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~  132 (165)
T d1z06a1          69 VQHYY-RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLA  132 (165)
T ss_dssp             HHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHH
T ss_pred             ceeee-cCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHH
Confidence            46788 99999999999999999999999999997765 46899999999999988887775443

>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=99.75  E-value=4.6e-19  Score=102.26  Aligned_cols=62  Identities=29%  Similarity=0.466  Sum_probs=54.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|| ++++++++|||+++++||++++.|+.++.+.. ..++|++++|||+|+.+.+.++..
T Consensus        68 ~~~~~~-~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e  130 (169)
T d1x1ra1          68 MREQYM-RTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRD  130 (169)
T ss_dssp             SHHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHH
T ss_pred             chhhhh-hhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehh
Confidence            467789 99999999999999999999999999987664 468999999999999988887643

>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=99.75  E-value=1.1e-18  Score=100.06  Aligned_cols=63  Identities=30%  Similarity=0.323  Sum_probs=55.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      ++..|+ ++++++++|||+++++||+++..|+.++.+.. .+++|++|||||+||.+.+.++...
T Consensus        68 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~  131 (167)
T d1xtqa1          68 FPQTYS-IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEE  131 (167)
T ss_dssp             CCGGGT-SSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHH
T ss_pred             ccchhh-hhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHH
Confidence            567889 99999999999999999999999999997765 4689999999999998888877543

>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=99.74  E-value=7.3e-19  Score=101.64  Aligned_cols=62  Identities=24%  Similarity=0.319  Sum_probs=53.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      ++.|+ +++|++|+|||+++++||+++..|..++.... .+++|+++||||+||.+.++++...
T Consensus        71 ~~~~~-~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~  133 (172)
T d2g3ya1          71 HDHCM-QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSE  133 (172)
T ss_dssp             HHCCC-CCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHH
T ss_pred             ccccc-cccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHH
Confidence            45688 99999999999999999999999999887654 4689999999999998888876443

>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=99.73  E-value=1.1e-18  Score=100.20  Aligned_cols=66  Identities=32%  Similarity=0.595  Sum_probs=55.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|| +++|++++|||+++++||+++..|+..+.....+..|++|||||+|+..+|+++....+.
T Consensus        68 ~~~~~~-~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~  133 (167)
T d1z08a1          68 LGPIYY-RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES  133 (167)
T ss_dssp             --CCSS-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHH
T ss_pred             cchhhc-cCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHH
Confidence            567889 999999999999999999999999988877666788999999999998888886544433

>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=99.72  E-value=3.8e-18  Score=97.95  Aligned_cols=66  Identities=35%  Similarity=0.678  Sum_probs=57.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|+ ++++++++|||+++++||++++.|...+.+...++.|+++||||+|+.+++.+.....+.
T Consensus        69 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~  134 (167)
T d1z0ja1          69 LAPMYY-RGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKD  134 (167)
T ss_dssp             GTHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHH
T ss_pred             HHHHHH-hhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHH
Confidence            467788 999999999999999999999999999888777899999999999998888877544443

>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=99.72  E-value=1.7e-18  Score=99.12  Aligned_cols=63  Identities=30%  Similarity=0.483  Sum_probs=55.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++++|||+++++||+++..|++++.+.. +++|+++||||+|+.++++++...+
T Consensus        67 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~  129 (164)
T d1z2aa1          67 ITKAYY-RGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEA  129 (164)
T ss_dssp             CCHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHH
T ss_pred             hhhhhh-ccCceEEEEEeccchhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhh
Confidence            456788 99999999999999999999999999998876 6799999999999988888764443

>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=99.70  E-value=1.8e-17  Score=95.53  Aligned_cols=60  Identities=35%  Similarity=0.614  Sum_probs=53.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ ++++++++|||+++++||+++..|+.++.+.. +++|+++||||+|+...+...+
T Consensus        68 ~~~~~~-~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~  127 (170)
T d1i2ma_          68 LRDGYY-IQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVKAK  127 (170)
T ss_dssp             CGGGGT-TTCCEEEEEEETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCTTT
T ss_pred             ecchhc-ccccchhhccccccccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhhhH
Confidence            567899 99999999999999999999999999998776 7899999999999987665543

>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=99.69  E-value=1.1e-17  Score=96.13  Aligned_cols=68  Identities=35%  Similarity=0.583  Sum_probs=58.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSG   70 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~   70 (78)
                      +++.|| ++++++++|||+++++||+++..|...+.+...+++|++|||||+|+.++++++....+..+
T Consensus        71 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~  138 (170)
T d1r2qa_          71 LAPMYY-RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYA  138 (170)
T ss_dssp             GHHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHH
T ss_pred             hHHHHh-hCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHH
Confidence            456789 99999999999999999999999999987777788999999999999988888765444433

>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=99.69  E-value=1.3e-17  Score=95.28  Aligned_cols=64  Identities=30%  Similarity=0.596  Sum_probs=55.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++++|||+++++||+++..|+.++.+...+++|+++||||+|+.+.+.+....+
T Consensus        65 ~~~~~~-~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~  128 (164)
T d1yzqa1          65 LIPSYI-RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEG  128 (164)
T ss_dssp             GHHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHH
T ss_pred             chHHHh-hccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHH
Confidence            356788 9999999999999999999999999999877778899999999999987777664333

>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=99.69  E-value=2e-17  Score=95.37  Aligned_cols=64  Identities=48%  Similarity=0.823  Sum_probs=56.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.++ +++|++++|||+++++||+.+..|+..+.+...+++|++|||||+|+...+.+.....
T Consensus        68 ~~~~~~-~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~  131 (173)
T d2a5ja1          68 ITRSYY-RGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEG  131 (173)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHH
T ss_pred             HHHHHh-hccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHH
Confidence            567888 9999999999999999999999999999887778899999999999987776664433

>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=99.68  E-value=5.1e-18  Score=97.73  Aligned_cols=64  Identities=23%  Similarity=0.425  Sum_probs=55.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++++|||+++++||+++..|++++.+.. .+++|+++||||+|+.+.++++....
T Consensus        68 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~  132 (168)
T d1u8za_          68 IRDNYF-RSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA  132 (168)
T ss_dssp             HHHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHH
T ss_pred             hhhhcc-cccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHH
Confidence            346788 99999999999999999999999999997765 47899999999999988888775433

>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=99.68  E-value=2.8e-18  Score=98.64  Aligned_cols=64  Identities=20%  Similarity=0.243  Sum_probs=53.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc--CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA--DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.|+ ++++++++|||+++++||+++..|+..+.+..  .+++|++|||||+|+.+.++++...++
T Consensus        67 ~~~~~-~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~  132 (171)
T d2erxa1          67 QRLSI-SKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAE  132 (171)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHH
T ss_pred             ccccc-cceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHH
Confidence            45788 99999999999999999999999998886643  367999999999999888887754333

>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=99.68  E-value=7e-18  Score=96.71  Aligned_cols=64  Identities=19%  Similarity=0.346  Sum_probs=54.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.|+ ++|+++++|||+++++||+++..|+..+.... .+++|++|||||+|+.+.+.+....++
T Consensus        68 ~~~~~-~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~  132 (167)
T d1kaoa_          68 RDLYI-KNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGR  132 (167)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHH
T ss_pred             hHHHh-hcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHH
Confidence            46788 99999999999999999999999999887654 367999999999999877777644443

>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=99.68  E-value=9.4e-18  Score=96.89  Aligned_cols=64  Identities=20%  Similarity=0.405  Sum_probs=54.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++++|||+++++||+.+..|+..+.+.. .+++|++|||||+|+.+.+++.....
T Consensus        70 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~  134 (173)
T d2fn4a1          70 MREQYM-RAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEA  134 (173)
T ss_dssp             CHHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHH
T ss_pred             ccchhh-ccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhh
Confidence            456788 99999999999999999999999999886654 47899999999999988777664443

>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=99.67  E-value=1.9e-17  Score=94.98  Aligned_cols=63  Identities=21%  Similarity=0.378  Sum_probs=54.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|+ ++++++++|||+++++||+++..|+..+.+.. .+++|++|||||+|+...+.++...
T Consensus        67 ~~~~~~-~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~  130 (167)
T d1c1ya_          67 MRDLYM-KNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQ  130 (167)
T ss_dssp             HHHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHH
T ss_pred             cccccc-cccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhH
Confidence            456789 99999999999999999999999999887654 4789999999999998877766443

>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=99.66  E-value=1.4e-17  Score=95.75  Aligned_cols=61  Identities=30%  Similarity=0.415  Sum_probs=51.6

Q ss_pred             ccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            4 SAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +.|+ ++++++++|||+++++||+++..|........ .++.|+++||||+||.++++++...
T Consensus        67 ~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e  128 (168)
T d2atva1          67 EGHM-RWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEE  128 (168)
T ss_dssp             HHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHH
T ss_pred             hhhh-cccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHH
Confidence            4578 99999999999999999999998877665443 3689999999999998888887443

>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=99.65  E-value=1.1e-16  Score=92.45  Aligned_cols=60  Identities=70%  Similarity=1.149  Sum_probs=54.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      ++..++ ++++++++|||+++++||+.+..|+..+.+...+++|+++||||+|+.+.+...
T Consensus        69 ~~~~~~-~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~  128 (175)
T d2f9la1          69 ITSAYY-RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP  128 (175)
T ss_dssp             CCHHHH-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC
T ss_pred             HHHHHh-hccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccch
Confidence            456788 999999999999999999999999999988887889999999999998766555

>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=99.65  E-value=3.2e-17  Score=95.31  Aligned_cols=64  Identities=34%  Similarity=0.587  Sum_probs=54.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      +++.|+ ++++++|+|||+++++||+.+..|+.++..+. .+..|+++||||.|+.+.++++...+
T Consensus        80 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~  144 (186)
T d2f7sa1          80 LTTAFF-RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQA  144 (186)
T ss_dssp             HHHHHH-TTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHH
T ss_pred             HHHHHH-hcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHH
Confidence            456788 99999999999999999999999998887665 36789999999999988888765443

>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=99.65  E-value=1.9e-16  Score=91.43  Aligned_cols=57  Identities=21%  Similarity=0.355  Sum_probs=46.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +++.|| +++|++|+|||+++++||+++..|+....+...+++|++|||||+|+.+.+
T Consensus        66 ~~~~~~-~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~  122 (177)
T d1kmqa_          66 LRPLSY-PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDE  122 (177)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCH
T ss_pred             cchhhc-ccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchh
Confidence            567899 999999999999999999999665444443344789999999999997543

>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=99.64  E-value=1.7e-16  Score=92.45  Aligned_cols=54  Identities=24%  Similarity=0.540  Sum_probs=45.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHH-HHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSR-WLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| +++|++++|||+++++||+++.. |...++.. .+++|+++||||+||.+
T Consensus        73 ~~~~~~-~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~  127 (185)
T d2atxa1          73 LRPLSY-PMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRD  127 (185)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTT
T ss_pred             hhhhcc-cccceeeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeecccccc
Confidence            567899 99999999999999999999855 55555555 47899999999999965

>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=99.64  E-value=6.1e-17  Score=93.08  Aligned_cols=65  Identities=26%  Similarity=0.424  Sum_probs=54.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ++.|+ +++|++++|||+++++||+.+..|+.++.+.. ....|+++||||+|+.+.+.++......
T Consensus        70 ~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~  135 (171)
T d2erya1          70 REQYM-RTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQ  135 (171)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHH
T ss_pred             ccccc-cccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHH
Confidence            45778 99999999999999999999999998886654 3679999999999998888777544433

>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=99.63  E-value=1e-16  Score=91.78  Aligned_cols=62  Identities=42%  Similarity=0.786  Sum_probs=54.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.++ +++|++++|||+++++||+.+..|+..+.+...+..|++++|||+|+.+.+.+...
T Consensus        69 ~~~~~~-~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~  130 (166)
T d1z0fa1          69 VTRSYY-RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYE  130 (166)
T ss_dssp             HHHHHH-HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHH
T ss_pred             HHHHHh-cCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHH
Confidence            356788 99999999999999999999999999998777788999999999999877766543

>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=99.62  E-value=1.6e-16  Score=91.36  Aligned_cols=62  Identities=29%  Similarity=0.611  Sum_probs=55.0

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ ++++++++|||++++.||+++..|+..+.+.....+|+++||||+|+.+.++++..
T Consensus        70 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~  131 (171)
T d2ew1a1          70 ITQSYY-RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQ  131 (171)
T ss_dssp             HHGGGS-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHH
T ss_pred             HHHHHH-hccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhh
Confidence            467899 99999999999999999999999999987776678999999999999877777644

>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=99.61  E-value=3.4e-16  Score=90.89  Aligned_cols=55  Identities=20%  Similarity=0.383  Sum_probs=45.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| +++|++++|||+++++||+.+..|+........+++|+++||||+|+..
T Consensus        66 ~~~~~~-~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          66 VRPLSY-PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  120 (179)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             cccchh-hhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccc
Confidence            467889 9999999999999999999997655444333347899999999999853

>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=99.60  E-value=6.2e-16  Score=88.75  Aligned_cols=62  Identities=34%  Similarity=0.659  Sum_probs=54.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ ++||++|+|||+++++|+..+..|+..+.....+..|++++|||+|+.+.+.++..
T Consensus        70 ~~~~~~-~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~  131 (169)
T d3raba_          70 ITTAYY-RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSE  131 (169)
T ss_dssp             HHHTTT-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHH
T ss_pred             HHHHHH-hcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchh
Confidence            456789 99999999999999999999999988887776688999999999999888877643

>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=99.60  E-value=2.5e-15  Score=87.95  Aligned_cols=65  Identities=37%  Similarity=0.679  Sum_probs=57.3

Q ss_pred             CccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++++.|+ ++|+++|+|||.+++++|..+..|...+.+....+.|+++||||+|+.+.+.+.....
T Consensus        70 ~~~~~~~-~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~  134 (194)
T d2bcgy1          70 TITSSYY-RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVA  134 (194)
T ss_dssp             CCCGGGG-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHH
T ss_pred             HHHHHHh-ccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHH
Confidence            3678999 9999999999999999999999999888777778899999999999998777775443

>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=99.59  E-value=1.1e-15  Score=89.28  Aligned_cols=56  Identities=20%  Similarity=0.277  Sum_probs=46.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +++.|| +++|++++|||+++++||+++..|+........+++|+++||||+||.+.
T Consensus        67 ~~~~~~-~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~  122 (191)
T d2ngra_          67 LRPLSY-PQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD  122 (191)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGC
T ss_pred             hhhhcc-cccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEecccccccc
Confidence            578899 99999999999999999999976544443334478999999999998643

>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=99.58  E-value=2.7e-15  Score=86.27  Aligned_cols=62  Identities=37%  Similarity=0.829  Sum_probs=52.5

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ ++++++|+|||++++.||+.+..|...+......+.|+++||||.|+...+.....
T Consensus        71 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~  132 (173)
T d2fu5c1          71 ITTAYY-RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKE  132 (173)
T ss_dssp             -CCTTT-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHH
T ss_pred             HHHHhc-cCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHH
Confidence            567889 99999999999999999999999999997777788999999999999877666543

>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=99.58  E-value=9e-16  Score=89.00  Aligned_cols=58  Identities=24%  Similarity=0.520  Sum_probs=48.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHH-HHHHHhhhcCCCCeEEEEeeCCCCCCCCCc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSR-WLKDLGDHADSNIVIMMIGNKTDLKHLPTS   61 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v   61 (78)
                      +++.|| ++++++++|||+++++||+++.. |...++... +++|++|||||+|+.+.+.+
T Consensus        69 ~~~~~~-~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~  127 (183)
T d1mh1a_          69 LRPLSY-PQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT  127 (183)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHH
T ss_pred             hhhhcc-cccceeeeeeccchHHHHHHHHHHHHHHHHHhC-CCCcEEEEeecccchhhhhh
Confidence            567889 99999999999999999999965 555555554 78999999999998765443

>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=99.57  E-value=7.4e-16  Score=88.59  Aligned_cols=63  Identities=43%  Similarity=0.702  Sum_probs=55.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.|+ ++++++++|||.+++++|+++..|...+.+...+++|+++||||+|+...+++....
T Consensus        70 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~  132 (174)
T d2bmea1          70 VTRSYY-RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLE  132 (174)
T ss_dssp             HHHTTS-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHH
T ss_pred             hHHHHh-hhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhH
Confidence            456788 999999999999999999999999999988777889999999999998777766443

>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=99.56  E-value=2.4e-15  Score=86.29  Aligned_cols=60  Identities=35%  Similarity=0.634  Sum_probs=49.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCCCCC-ch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKHLPT-SM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~~~~-v~   62 (78)
                      ++..|+ ++++++++|||++++.||+.+..|+.++.+..    ..++|+++||||+|+.+.+. ++
T Consensus        68 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~  132 (175)
T d1ky3a_          68 LGVAFY-RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVS  132 (175)
T ss_dssp             ---CCS-TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSC
T ss_pred             HHHHHh-hccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchh
Confidence            456788 99999999999999999999999999886543    25789999999999986543 44

>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=2.1e-15  Score=86.20  Aligned_cols=56  Identities=23%  Similarity=0.533  Sum_probs=49.2

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCC
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~   59 (78)
                      ++.++ ++++++++|||+++++||+++..|+..+.+... +++|+++||||+|+.+..
T Consensus        68 ~~~~~-~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  124 (166)
T d1ctqa_          68 RDQYM-RTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAART  124 (166)
T ss_dssp             HHHHH-HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCC
T ss_pred             hhhhh-hcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccccc
Confidence            45678 999999999999999999999999999977653 679999999999997543

>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=99.53  E-value=1.4e-14  Score=83.89  Aligned_cols=61  Identities=13%  Similarity=0.277  Sum_probs=49.8

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc---CCCCeEEEEeeCCCCCC--CCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA---DSNIVIMMIGNKTDLKH--LPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~lvgnK~Dl~~--~~~v~~~   64 (78)
                      ...|| ++||++|+|||+++++||+++..|++.+....   .+++|+++||||.|+..  .+.++..
T Consensus        64 ~~~~~-~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~  129 (175)
T d2bmja1          64 DAKFS-GWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDA  129 (175)
T ss_dssp             CHHHH-HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHH
T ss_pred             ccccc-cccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHH
Confidence            45688 99999999999999999999999998886543   36789999999988854  4556543

>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=99.52  E-value=1.4e-14  Score=82.92  Aligned_cols=62  Identities=35%  Similarity=0.701  Sum_probs=53.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +++.|+ +++|++++|||+++++||..+..|+....+..++..|+++||||+|+.+.+.++..
T Consensus        72 ~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~  133 (170)
T d2g6ba1          72 VTHAYY-RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKRE  133 (170)
T ss_dssp             ---CCG-GGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHH
T ss_pred             HHHHhh-cCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHH
Confidence            567889 99999999999999999999999988887777678999999999999988777744

>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=99.50  E-value=1.9e-14  Score=83.25  Aligned_cols=63  Identities=32%  Similarity=0.551  Sum_probs=51.9

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      +++.++ +++++++++||.+++.+|+.+..|++++.+..    ..++|+++||||+||.+.+...+..
T Consensus        67 ~~~~~~-~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~  133 (184)
T d1vg8a_          67 LGVAFY-RGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRA  133 (184)
T ss_dssp             SCCGGG-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHH
T ss_pred             cccccc-cCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHH
Confidence            456778 99999999999999999999999999886653    2468999999999997755544433

>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=99.50  E-value=1.1e-14  Score=83.27  Aligned_cols=62  Identities=37%  Similarity=0.679  Sum_probs=52.4

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC---CCchHH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL---PTSMSI   64 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~---~~v~~~   64 (78)
                      +++.|+ +++|++++|||+++++||+++..|+.+.........|++++|||+|+.+.   +.++..
T Consensus        68 ~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~  132 (170)
T d1ek0a_          68 LAPMYY-RNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVARE  132 (170)
T ss_dssp             GHHHHH-TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHH
T ss_pred             HHHHHH-hccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHH
Confidence            356788 99999999999999999999999998887776678999999999998543   555543

>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=99.48  E-value=1.7e-13  Score=78.99  Aligned_cols=66  Identities=17%  Similarity=0.237  Sum_probs=53.1

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.|+ ++++++++|||++++.++..+..|+....+.. ..+.|++++|||+|+.+.....+....+
T Consensus        77 ~~~~~~-~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~  143 (182)
T d1moza_          77 YWRCYY-ADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKEL  143 (182)
T ss_dssp             TGGGTT-TTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHT
T ss_pred             hHHhhh-ccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHH
Confidence            567889 99999999999999999999988877664433 4679999999999998765555544443

>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=99.46  E-value=6.8e-14  Score=80.27  Aligned_cols=59  Identities=29%  Similarity=0.563  Sum_probs=49.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc----CCCCeEEEEeeCCCCCCCCCchH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA----DSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      .+.++ +.+++++++||++++.||+.+..|++++.+..    .+++|+++||||+|+.+ +.++.
T Consensus        72 ~~~~~-~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~  134 (174)
T d1wmsa_          72 RTPFY-RGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVST  134 (174)
T ss_dssp             HGGGG-TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCH
T ss_pred             hhhhh-hccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcH
Confidence            35677 89999999999999999999999998886543    25799999999999965 55543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.45  E-value=2.2e-13  Score=77.48  Aligned_cols=67  Identities=21%  Similarity=0.343  Sum_probs=54.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      .++.|+ ++++++++|||++++++|+.+..|+..+.+.. .+++|++|||||.|+.+.....+.....+
T Consensus        63 ~~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~  130 (164)
T d1zd9a1          63 MWERYC-RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMN  130 (164)
T ss_dssp             THHHHH-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTT
T ss_pred             cccccc-cccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhHHHHHHHHH
Confidence            356788 99999999999999999999988887775543 47899999999999987666555555543

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.44  E-value=2e-13  Score=78.05  Aligned_cols=63  Identities=21%  Similarity=0.287  Sum_probs=51.5

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ++.|+ ++++++++|||++++.||.++..|+.++.... ..++|++++|||+|+.+.........
T Consensus        77 ~~~~~-~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~  140 (176)
T d1fzqa_          77 WRSYF-ENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE  140 (176)
T ss_dssp             HHHHH-TTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             HHHHh-hccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHH
Confidence            45788 99999999999999999999988887775544 46799999999999987665554443

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.41  E-value=8.1e-13  Score=75.60  Aligned_cols=64  Identities=20%  Similarity=0.356  Sum_probs=50.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhh-hcCCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGD-HADSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      ++.++ ++++++++|||+++++++.++..|+....+ ....+.|++++|||+|+.+.....+....
T Consensus        73 ~~~~~-~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~  137 (173)
T d1e0sa_          73 WRHYY-TGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEK  137 (173)
T ss_dssp             HGGGT-TTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHH
T ss_pred             HHhhh-cccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHH
Confidence            46788 999999999999999999999777766544 33478999999999999876555444443

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.40  E-value=1.5e-12  Score=73.73  Aligned_cols=66  Identities=20%  Similarity=0.306  Sum_probs=52.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL-GDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      +++.++ +++++++++||++++.++.....|+... ......+.|+++||||+|+.+.+.+.+.....
T Consensus        62 ~~~~~~-~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~  128 (165)
T d1ksha_          62 YWRNYF-ESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEAL  128 (165)
T ss_dssp             TGGGGC-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHT
T ss_pred             HHHhhh-hhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHHHHH
Confidence            456788 9999999999999999999986655444 43334789999999999998877777665544

>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=99.31  E-value=1.9e-12  Score=74.34  Aligned_cols=59  Identities=41%  Similarity=0.765  Sum_probs=50.6

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcC-CCCeEEEEeeCCCCCCCCCch
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHAD-SNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      +++.|+ ++++++++|||++++++|+.+..|+.++.+... ...|+++++||.|..+ +.+.
T Consensus        72 ~~~~~~-~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~-~~v~  131 (177)
T d1x3sa1          72 LTPSYY-RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVD  131 (177)
T ss_dssp             SHHHHH-TTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSC
T ss_pred             HHHHHH-hcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccc-cccc
Confidence            456788 999999999999999999999999999977653 5789999999999754 5554

>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=99.27  E-value=1.2e-11  Score=70.17  Aligned_cols=61  Identities=39%  Similarity=0.870  Sum_probs=52.8

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchH
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMS   63 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~   63 (78)
                      +++.|+ ++++++++|||.++++||+++..|............|+++++||.|+.+.....+
T Consensus        67 ~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~~~~  127 (166)
T d1g16a_          67 ITTAYY-RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTAD  127 (166)
T ss_dssp             CCHHHH-TTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCHH
T ss_pred             HHHHHH-hcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhhhHH
Confidence            567889 9999999999999999999999998888877778899999999999976544443

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.01  E-value=1e-09  Score=60.77  Aligned_cols=61  Identities=18%  Similarity=0.282  Sum_probs=49.3

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +..|+ +++++++++||++++.++..+..|..++.... ....|++++|||.|+.+.....+.
T Consensus        61 ~~~~~-~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i  122 (160)
T d1r8sa_          61 WRHYF-QNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEI  122 (160)
T ss_dssp             HHHHT-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHH
T ss_pred             hhhhh-ccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHH
Confidence            34678 99999999999999999999988877775443 367899999999999765544433

>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=98.98  E-value=1e-09  Score=63.89  Aligned_cols=60  Identities=17%  Similarity=0.226  Sum_probs=43.7

Q ss_pred             ccchhcCCcEEEEEEECCChhhH-HHHHHHHHHH-hhh--cCCCCeEEEEeeCCCCCCCCCchHH
Q 038356            4 SAYYNRGALGALLVYDVTKSTTF-ENVSRWLKDL-GDH--ADSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         4 ~~y~~~~a~~~ilv~d~~~~~s~-~~~~~~~~~~-~~~--~~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      +.|+ ++++++++|+|.++..++ .....|+..+ ...  ....+|++|+|||+|+.+.+...+.
T Consensus        66 ~~~~-~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~~~~i  129 (207)
T d2fh5b1          66 DRFK-SSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLI  129 (207)
T ss_dssp             HHHG-GGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHH
T ss_pred             hhhh-hhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCCHHHH
Confidence            5677 899999999999998764 4555554444 222  2356899999999999877665543

>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=98.90  E-value=3.7e-10  Score=64.56  Aligned_cols=55  Identities=13%  Similarity=0.112  Sum_probs=44.8

Q ss_pred             CccccchhcCCcEEEEEEECCChhhH-----------HHHHHHHHHHhhhcCCCCeEEEEeeCCCCC
Q 038356            1 VINSAYYNRGALGALLVYDVTKSTTF-----------ENVSRWLKDLGDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         1 sl~~~y~~~~a~~~ilv~d~~~~~s~-----------~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      ++++.|| ++++++++|||+++.++|           +....|...+......+.|++++|||+|+.
T Consensus        57 ~~~~~~~-~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          57 KKWIHCF-EGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             GGGGGGC-TTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             cchhhcc-cCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            3678999 999999999999999887           334566666665556789999999999973

>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=98.86  E-value=7.1e-09  Score=58.44  Aligned_cols=61  Identities=21%  Similarity=0.227  Sum_probs=47.7

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSI   64 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~   64 (78)
                      ...++ +.++++++++|.++.++++....+........ ....|+++||||+|+.......+.
T Consensus        76 ~~~~~-~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i  137 (177)
T d1zj6a1          76 WNTYY-TNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEI  137 (177)
T ss_dssp             GHHHH-TTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHH
T ss_pred             hhhhh-ccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHH
Confidence            34567 89999999999999999999876665554433 378999999999999766554433

>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=98.74  E-value=1.2e-08  Score=57.95  Aligned_cols=51  Identities=20%  Similarity=0.253  Sum_probs=37.4

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ ++||++++|+|.++..+... +.|.+.++... .+.|+++|+||+|+...
T Consensus        80 ~~~-~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~~-~~~piilv~NK~Dl~~~  130 (178)
T d1wf3a1          80 EAL-ADVNAVVWVVDLRHPPTPED-ELVARALKPLV-GKVPILLVGNKLDAAKY  130 (178)
T ss_dssp             HHT-SSCSEEEEEEETTSCCCHHH-HHHHHHHGGGT-TTSCEEEEEECGGGCSS
T ss_pred             ccc-ccccceeeeechhhhhcccc-cchhhheeccc-cchhhhhhhcccccccC
Confidence            346 79999999999987654332 44555555443 67899999999998653

>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=98.71  E-value=6.6e-09  Score=59.37  Aligned_cols=55  Identities=11%  Similarity=0.052  Sum_probs=46.8

Q ss_pred             ccccchhcCCcEEEEEEECCChh-----------hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKST-----------TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~-----------s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +++.|| +++++++++||.++..           +++.+..|...+......++|++++|||+|+.+
T Consensus        61 ~~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~  126 (200)
T d2bcjq2          61 KWIHCF-ENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  126 (200)
T ss_dssp             GGGGGC-SSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHH
T ss_pred             cccccc-cccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhh
Confidence            567899 9999999999998864           567778898888777668899999999999854

>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=98.70  E-value=1e-07  Score=52.30  Aligned_cols=65  Identities=17%  Similarity=0.293  Sum_probs=51.7

Q ss_pred             ccccchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhc-CCCCeEEEEeeCCCCCCCCCchHHHHh
Q 038356            2 INSAYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHA-DSNIVIMMIGNKTDLKHLPTSMSIFQS   67 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~lvgnK~Dl~~~~~v~~~~~~   67 (78)
                      +.+.++ +.++++++++|.+++.++.....|........ ..+.|+++++||.|+.......+....
T Consensus        60 ~~~~~~-~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~~~i~~~  125 (166)
T d2qtvb1          60 LWKDYF-PEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSA  125 (166)
T ss_dssp             GGGGGC-TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCHHHHHHH
T ss_pred             hHhhhh-hheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCHHHHHHH
Confidence            356778 99999999999999999999977777665544 367899999999999876655554444

>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=98.64  E-value=1.8e-08  Score=59.45  Aligned_cols=56  Identities=13%  Similarity=0.084  Sum_probs=41.2

Q ss_pred             ccccchhcCCcEEEEEEECCChh----------h-HHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKST----------T-FENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~----------s-~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .+..|| ++++++++++|+++.+          + .+....|...+......++|++|+|||+||.++
T Consensus        63 ~w~~~~-~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~  129 (221)
T d1azta2          63 KWIQCF-NDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAE  129 (221)
T ss_dssp             GGGGGC-TTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHH
T ss_pred             chhhhc-ccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhh
Confidence            457889 9999999999998643          2 333344555555444478999999999999544

>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=98.62  E-value=4e-09  Score=58.85  Aligned_cols=52  Identities=17%  Similarity=0.237  Sum_probs=43.2

Q ss_pred             cchhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            5 AYYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         5 ~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .++ +++|++++++|.++..+++....|...+.... ...|+++|+||+||.++
T Consensus        76 ~~~-~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~  127 (161)
T d2gj8a1          76 QEI-EQADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGE  127 (161)
T ss_dssp             HHH-HTCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCC
T ss_pred             HHH-Hhccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhh
Confidence            457 89999999999999999888887776666554 67899999999998553

>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=98.59  E-value=1.8e-08  Score=57.77  Aligned_cols=54  Identities=17%  Similarity=0.209  Sum_probs=40.3

Q ss_pred             ccccchhcCCcEEEEEEECCChhh----------HHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCC
Q 038356            2 INSAYYNRGALGALLVYDVTKSTT----------FENVSRWLKDL-GDHADSNIVIMMIGNKTDLK   56 (78)
Q Consensus         2 l~~~y~~~~a~~~ilv~d~~~~~s----------~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~   56 (78)
                      .++.|| +++++++++||.++..+          ++....|+..+ ......++|++|+|||+|+.
T Consensus        60 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~  124 (200)
T d1zcba2          60 RWFECF-DSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL  124 (200)
T ss_dssp             -CTTSC-TTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             cccccc-cccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhh
Confidence            467899 99999999999998644          44554555554 33334789999999999984

>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=98.49  E-value=5.6e-07  Score=49.57  Aligned_cols=62  Identities=18%  Similarity=0.227  Sum_probs=47.1

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHH-HhhhcCCCCeEEEEeeCCCCCCCCCchHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKD-LGDHADSNIVIMMIGNKTDLKHLPTSMSIF   65 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~-~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~   65 (78)
                      ...++ +.++++++++|+++..++.....+... ......+..|+++++||.|+.+.....+..
T Consensus        66 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~  128 (169)
T d1upta_          66 WRCYY-SNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMA  128 (169)
T ss_dssp             GGGGC-TTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHH
T ss_pred             chhhh-hhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHH
Confidence            34567 899999999999999999988665444 444334779999999999998766544333

>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=98.37  E-value=1.8e-06  Score=48.09  Aligned_cols=63  Identities=19%  Similarity=0.272  Sum_probs=47.9

Q ss_pred             cccchhcCCcEEEEEEECCChhhHHHHHHHHHHH-hhhcCCCCeEEEEeeCCCCCCCCCchHHHH
Q 038356            3 NSAYYNRGALGALLVYDVTKSTTFENVSRWLKDL-GDHADSNIVIMMIGNKTDLKHLPTSMSIFQ   66 (78)
Q Consensus         3 ~~~y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~   66 (78)
                      ...++ +..+++++++|+++..++.....+.... ......+.|+++++||.|+.....+.....
T Consensus        74 ~~~~~-~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~~~~i~~  137 (186)
T d1f6ba_          74 WKNYL-PAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLRE  137 (186)
T ss_dssp             GGGGG-GGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHH
T ss_pred             Hhhhh-cccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCCHHHHHH
Confidence            45677 8999999999999999999886544444 333347899999999999977655544433

>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=98.08  E-value=2.4e-06  Score=48.16  Aligned_cols=61  Identities=16%  Similarity=0.097  Sum_probs=39.9

Q ss_pred             chhcCCcEEEEEEECCCh--hhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhc
Q 038356            6 YYNRGALGALLVYDVTKS--TTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSL   68 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~   68 (78)
                      ++ ..++.+++++|....  ++++....|+....... .+.|+++|+||+|+.+...+....+.+
T Consensus        76 ~~-~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~D~~~~~~~~~~~~~~  138 (180)
T d1udxa2          76 HI-ARTRVLLYVLDAADEPLKTLETLRKEVGAYDPAL-LRRPSLVALNKVDLLEEEAVKALADAL  138 (180)
T ss_dssp             HH-TSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHH-HHSCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HH-Hhhhhhhhhcccccccccchhhhhhhhhcccccc-chhhhhhhhhhhhhhhHHHHHHHHHHH
Confidence            35 688999999997654  34444455554443222 457999999999997766555444433

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.04  E-value=1.6e-05  Score=45.19  Aligned_cols=53  Identities=19%  Similarity=0.305  Sum_probs=37.2

Q ss_pred             CCcEEEEEEECC-ChhhHHHHHHHHHHH----hhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356           10 GALGALLVYDVT-KSTTFENVSRWLKDL----GDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus        10 ~a~~~ilv~d~~-~~~s~~~~~~~~~~~----~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .++.+++++|.+ +..+++.+..|+...    ......+.|+++++||+|+.+.....
T Consensus        73 ~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~  130 (209)
T d1nrjb_          73 FVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPS  130 (209)
T ss_dssp             GEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHH
T ss_pred             hccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCcHH
Confidence            446777777755 567777777666443    33345789999999999997655433

>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=97.82  E-value=1.2e-05  Score=44.80  Aligned_cols=47  Identities=21%  Similarity=0.191  Sum_probs=32.9

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      ++ ..+|.++++.+.++..+... ..|...++..   +.|+++|+||+|+.+
T Consensus        77 ~~-~~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~---~~pviiv~NK~Dl~~  123 (171)
T d1mkya1          77 MI-READLVLFVVDGKRGITKED-ESLADFLRKS---TVDTILVANKAENLR  123 (171)
T ss_dssp             HH-TTCSEEEEEEETTTCCCHHH-HHHHHHHHHH---TCCEEEEEESCCSHH
T ss_pred             cc-ccCcEEEEeecccccccccc-cccccccccc---cccccccchhhhhhh
Confidence            35 68999999998766544332 4455555543   478999999999854

>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=97.50  E-value=9e-05  Score=41.90  Aligned_cols=50  Identities=12%  Similarity=0.052  Sum_probs=32.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCch
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSM   62 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~   62 (78)
                      .++++++++.|.++.-.- .-..+++.++.   .+.|+++|+||+|+.......
T Consensus       104 ~~~~~vi~viD~~~~~~~-~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~~  153 (195)
T d1svia_         104 EELKAVVQIVDLRHAPSN-DDVQMYEFLKY---YGIPVIVIATKADKIPKGKWD  153 (195)
T ss_dssp             TTEEEEEEEEETTSCCCH-HHHHHHHHHHH---TTCCEEEEEECGGGSCGGGHH
T ss_pred             cchhhhhhhhhccccccc-ccccccccccc---ccCcceechhhccccCHHHHH
Confidence            567899999998754321 11334444443   357899999999986555444

>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=97.38  E-value=4.6e-05  Score=45.85  Aligned_cols=63  Identities=13%  Similarity=0.017  Sum_probs=41.3

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhccCccccc
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLSGLLFKL   75 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~~~~f~~   75 (78)
                      .. ..+|.++.|.|.-++-|..+  ..++++.    .+.|+++|.||+||.+........+.+....+..
T Consensus        12 ~i-~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~~~~~w~~~f~~~~~~~   74 (273)
T d1puja_          12 KL-KLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAAVTQQWKEHFENQGIRS   74 (273)
T ss_dssp             HG-GGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHHHHHHHHHHHHTTTCCE
T ss_pred             HH-HhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchHHHHHHHHHHHhcCCcc
Confidence            45 78999999999887765443  1222222    2468999999999987665555555444433433

>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=97.31  E-value=0.00034  Score=37.97  Aligned_cols=55  Identities=20%  Similarity=0.102  Sum_probs=38.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCCchHHHHhcc
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPTSMSIFQSLS   69 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~v~~~~~~~~   69 (78)
                      +++|++++|+|.++..+.....-+.     .. ...++++++||.|+.+.....+.....+
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~-----~~-~~~~~i~~~~k~d~~~~~~~~~~~~~~~  133 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILE-----RI-KNKRYLVVINKVDVVEKINEEEIKNKLG  133 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHH-----HH-TTSSEEEEEEECSSCCCCCHHHHHHHHT
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhh-----hc-ccccceeeeeeccccchhhhHHHHHHhC
Confidence            6899999999999987755433221     11 4568899999999987665555544443

>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=97.19  E-value=0.0002  Score=39.73  Aligned_cols=49  Identities=18%  Similarity=0.071  Sum_probs=31.5

Q ss_pred             chhcCCcEEEEEEECCChhhHHHHH----------HHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            6 YYNRGALGALLVYDVTKSTTFENVS----------RWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         6 y~~~~a~~~ilv~d~~~~~s~~~~~----------~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      .. +++|+++++.|.+.........          ...+.+.   ..+.|+++|+||+|+...
T Consensus        78 ~~-~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~---~~~~p~iiv~NK~D~~~~  136 (184)
T d2cxxa1          78 NA-KNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLR---ELDIPTIVAVNKLDKIKN  136 (184)
T ss_dssp             HG-GGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHH---HTTCCEEEEEECGGGCSC
T ss_pred             cc-cccchheeeeeccccchhhhhhhhccccHHHHHHHHHHH---HcCCCEEEEEeeeehhhh
Confidence            35 6889999999987654433221          1112222   246899999999997543

>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=97.14  E-value=0.00037  Score=39.02  Aligned_cols=47  Identities=21%  Similarity=0.091  Sum_probs=31.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..+|++++++|.++...-.....| ..+..   .++|+++|.||+|+.+..
T Consensus        81 ~~~d~~ilv~d~~~g~~~~~~~~~-~~~~~---~~~p~iiv~NKiD~~~~~  127 (179)
T d1wb1a4          81 DIIDLALIVVDAKEGPKTQTGEHM-LILDH---FNIPIIVVITKSDNAGTE  127 (179)
T ss_dssp             TSCCEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCBCEEEECTTSSCHH
T ss_pred             hhccccccccccccccchhhhhhh-hhhhh---cCCcceeccccccccCHH
Confidence            688999999999875432222222 22222   458999999999997643

>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=97.08  E-value=0.00036  Score=38.93  Aligned_cols=52  Identities=10%  Similarity=0.034  Sum_probs=29.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHH--HHHHH---hhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSR--WLKDL---GDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~--~~~~~---~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      +.++.++.+.+....+.......  +....   ......+.|+++|+||+|+.+...
T Consensus        78 ~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~  134 (185)
T d1lnza2          78 ERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAE  134 (185)
T ss_dssp             HHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHH
T ss_pred             HHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHH
Confidence            45777777776655443222211  11111   111124689999999999976543

>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=97.06  E-value=0.00042  Score=38.58  Aligned_cols=47  Identities=21%  Similarity=0.102  Sum_probs=32.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +.+|++++|+|.+.... +....+...+..   .+.|+++|+||+|+....
T Consensus        90 ~~~dvii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~  136 (186)
T d1mkya2          90 EKADVVVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVHR  136 (186)
T ss_dssp             HHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTTG
T ss_pred             hcCCEEEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcch
Confidence            68899999999875433 222344444443   457999999999985443

>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=96.99  E-value=0.0012  Score=38.37  Aligned_cols=46  Identities=22%  Similarity=0.094  Sum_probs=30.3

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..+|++|+|.|..+.-.-.. ...+..+..   .+.|++++.||+|+.+.
T Consensus        92 ~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~  137 (227)
T d1g7sa4          92 ALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHG  137 (227)
T ss_dssp             BSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTT
T ss_pred             cccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCc
Confidence            67999999999876322111 222223332   45799999999998653

>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=96.73  E-value=0.0014  Score=38.63  Aligned_cols=48  Identities=19%  Similarity=0.165  Sum_probs=36.8

Q ss_pred             cCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .+.|.+++|.++.+++ +...+..|+-.+..   .++|.+||-||+||.++.
T Consensus         9 ANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~   57 (225)
T d1u0la2           9 ANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDED   57 (225)
T ss_dssp             ESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHH
T ss_pred             ccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHH
Confidence            5889999999988864 56666777655543   568999999999997643

>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=96.65  E-value=0.003  Score=37.28  Aligned_cols=48  Identities=19%  Similarity=0.198  Sum_probs=36.8

Q ss_pred             cCCcEEEEEEECCChh-hHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKST-TFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      .+.|.+++|.+..+++ ++..+..++-....   .+++.+||.||+||.+..
T Consensus         9 ANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~   57 (231)
T d1t9ha2           9 CNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQ   57 (231)
T ss_dssp             ECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCH
T ss_pred             cccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccH
Confidence            4889999999988864 56667777655543   568999999999997643

>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=95.46  E-value=0.011  Score=33.43  Aligned_cols=48  Identities=19%  Similarity=0.162  Sum_probs=28.8

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.+|++|+|.|..+--.-...++-+..+...  .-.|++++.||+|+.+.
T Consensus       108 ~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~  155 (205)
T d2qn6a3         108 ALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSK  155 (205)
T ss_dssp             SCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCH
T ss_pred             eccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccc
Confidence            5789999999987631111222222222222  23488999999999654

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.43  E-value=0.012  Score=36.40  Aligned_cols=43  Identities=28%  Similarity=0.316  Sum_probs=31.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      +-+|++++|.|..+--.....+.|.....    .++|++++-||+|.
T Consensus       118 ~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr  160 (341)
T d1n0ua2         118 RVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDR  160 (341)
T ss_dssp             HTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHH
T ss_pred             hhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECccc
Confidence            67899999999987554444444543322    45899999999996

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.43  E-value=0.014  Score=33.27  Aligned_cols=45  Identities=20%  Similarity=0.195  Sum_probs=29.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCe-EEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIV-IMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~~lvgnK~Dl~~   57 (78)
                      +.||++|+|.|.++--.-...+.|. .+..   .++| ++++-||.|+.+
T Consensus        89 ~~aD~avlVvda~~Gv~~qt~~~~~-~~~~---~gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3          89 AQMDGAILVVSAADGPMPQTREHIL-LARQ---VGVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             TTCSSEEEEEETTTCCCHHHHHHHH-HHHH---TTCCCEEEEEECGGGCC
T ss_pred             HHCCEEEEEEECCCCCcHHHHHHHH-HHHH---cCCCeEEEEEEecccCC
Confidence            5789999999987643333334443 3332   2455 677789999855

>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=95.24  E-value=0.021  Score=32.41  Aligned_cols=47  Identities=15%  Similarity=0.060  Sum_probs=30.1

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      +.+|++++|.|..+-- +++.++.+..+...  ...|++++-||.|+.+.
T Consensus        88 ~~aD~allVVda~~G~-~~QT~~~~~~a~~~--~~~~iIv~iNK~D~~~~  134 (196)
T d1d2ea3          88 APLDGCILVVAANDGP-MPQTREHLLLARQI--GVEHVVVYVNKADAVQD  134 (196)
T ss_dssp             SCCSEEEEEEETTTCS-CHHHHHHHHHHHHT--TCCCEEEEEECGGGCSC
T ss_pred             hhcCeEEEEEEcCCCC-chhHHHHHHHHHHh--cCCcEEEEEeccccccc
Confidence            5789999999987632 22333333333332  23578889999998653

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.49  E-value=0.054  Score=32.42  Aligned_cols=57  Identities=18%  Similarity=0.286  Sum_probs=36.6

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC---CchHHHHhcc
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP---TSMSIFQSLS   69 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~---~v~~~~~~~~   69 (78)
                      +-+|++|+|.|..+--.-.-.+-| +..++   .++|.+++-||.|..+..   .+.+..+.++
T Consensus        93 ~~~D~avlVvda~~Gv~~~T~~~w-~~a~~---~~lP~i~fINKmDr~~ad~~~~l~ei~~~l~  152 (276)
T d2bv3a2          93 RVLDGAIVVFDSSQGVEPQSETVW-RQAEK---YKVPRIAFANKMDKTGADLWLVIRTMQERLG  152 (276)
T ss_dssp             HHCCEEEEEEETTTSSCHHHHHHH-HHHHT---TTCCEEEEEECTTSTTCCHHHHHHHHHHTTC
T ss_pred             HhhhheEEeccccCCcchhHHHHH-HHHHH---cCCCEEEEEecccccccccchhHHHHHHHhC
Confidence            568999999998775333333445 33332   569999999999986532   3334444444

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=94.17  E-value=0.038  Score=32.91  Aligned_cols=43  Identities=16%  Similarity=0.156  Sum_probs=30.4

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      +-+|++++|.|..+--.-...+.|. .+.+   .++|.+++.||+|.
T Consensus        89 ~~~D~avlvvda~~Gv~~~t~~~~~-~~~~---~~~p~~i~iNk~D~  131 (267)
T d2dy1a2          89 EAADAALVAVSAEAGVQVGTERAWT-VAER---LGLPRMVVVTKLDK  131 (267)
T ss_dssp             HHCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEECGGG
T ss_pred             cccCceEEEeeccCCccchhHHHHH-hhhh---cccccccccccccc
Confidence            5689999999988654443334453 3332   45899999999995

>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=93.67  E-value=0.046  Score=30.40  Aligned_cols=49  Identities=20%  Similarity=0.135  Sum_probs=29.9

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      +.+|+++++.|..+.-.-...++-+..+...  ...+++++-||.|+.+..
T Consensus       100 ~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~--~~~~iiv~inK~D~~d~~  148 (195)
T d1kk1a3         100 SLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDKE  148 (195)
T ss_dssp             GGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCHH
T ss_pred             ccccccccccchhhhhhhhhhHHHHHHHHHh--cCccceeeeecccchhhH
Confidence            5789999999987742222222222223322  224578899999987643

>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=91.87  E-value=0.24  Score=28.08  Aligned_cols=47  Identities=19%  Similarity=0.123  Sum_probs=27.1

Q ss_pred             cCCcEEEEEEECCChh---hH---HHHHHHHHHHhhhcCCCCeEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKST---TF---ENVSRWLKDLGDHADSNIVIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~---s~---~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~   57 (78)
                      +-+|++++|.|..+--   ++   ..+++-+.... .. ...+++++-||+|+..
T Consensus       103 ~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~-~~-~~~~iIv~iNK~D~~~  155 (224)
T d1jnya3         103 SQADAAILVVSAKKGEYEAGMSVEGQTREHIILAK-TM-GLDQLIVAVNKMDLTE  155 (224)
T ss_dssp             SCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHH-HT-TCTTCEEEEECGGGSS
T ss_pred             HhhceEEEEEecccCcccccccccchhHHHHHHHH-Hh-CCCceEEEEEcccCCC
Confidence            5789999999998631   11   11211111111 11 2346788899999864

>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=90.48  E-value=0.67  Score=26.38  Aligned_cols=46  Identities=17%  Similarity=0.042  Sum_probs=27.5

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCC-eEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNI-VIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~-~~~lvgnK~Dl~~~   58 (78)
                      ..+|++++|.|...--.=...++| ..+..   -++ .++++-||.|+.+.
T Consensus       111 ~~aD~ailVvda~~G~~~Qt~e~~-~~~~~---~gv~~iiv~vNK~D~~~~  157 (222)
T d1zunb3         111 STCDLAIILVDARYGVQTQTRRHS-YIASL---LGIKHIVVAINKMDLNGF  157 (222)
T ss_dssp             TTCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCEEEEEEECTTTTTS
T ss_pred             ccCceEEEEeccccCcccchHHHH-HHHHH---cCCCEEEEEEEccccccc
Confidence            478999999998763211111222 11221   234 47889999999764

>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=90.32  E-value=0.27  Score=26.24  Aligned_cols=45  Identities=18%  Similarity=0.132  Sum_probs=26.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~   58 (78)
                      ..++.++++.|.++...  ....+...+.+   ...|.++|.||.|+...
T Consensus        84 ~~~~~~l~~~d~~~~~~--~~~~~~~~l~~---~~~~~i~v~~k~d~~~~  128 (179)
T d1egaa1          84 GDVELVIFVVEGTRWTP--DDEMVLNKLRE---GKAPVILAVNKVDNVQE  128 (179)
T ss_dssp             CCEEEEEEEEETTCCCH--HHHHHHHHHHS---SSSCEEEEEESTTTCCC
T ss_pred             hhcceeEEEEecCccch--hHHHHHHHhhh---ccCceeeeeeeeeccch
Confidence            45677777777665332  22223333332   45678889999997654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=85.95  E-value=0.59  Score=27.02  Aligned_cols=51  Identities=8%  Similarity=-0.114  Sum_probs=28.7

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCC--CeEEEEeeCCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSN--IVIMMIGNKTDLKHLP   59 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~~~lvgnK~Dl~~~~   59 (78)
                      .+.+++++|.+++...--+.-...+..+.+..+++  .++++|.||+|.....
T Consensus       111 ~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         111 KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             CEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             CCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcC
Confidence            35678888888765321111122333343333332  3689999999986533

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=85.37  E-value=0.98  Score=26.20  Aligned_cols=53  Identities=11%  Similarity=0.026  Sum_probs=32.1

Q ss_pred             ccchhcCCcEEE-EEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCCC
Q 038356            4 SAYYNRGALGAL-LVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLPT   60 (78)
Q Consensus         4 ~~y~~~~a~~~i-lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~~   60 (78)
                      ..|. ...+.++ +|.+.+..-+-..+..|.+.+..   ...+++.|-||.|..+..+
T Consensus       156 ~~y~-~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~---~~~r~i~Vltk~D~~~~~~  209 (299)
T d2akab1         156 MQFV-TKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHH-TSTTEEEEEEEESSSCGGGCHHHHHHHHHCT---TCSSEEEEEECGGGSCTTC
T ss_pred             HHHh-cCccceeeeecccccchhhhHHHHHHHHhCc---CCCceeeEEeccccccchh
Confidence            3466 6666555 45555544444445556555543   3457888999999865433

>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=85.01  E-value=0.92  Score=26.05  Aligned_cols=45  Identities=20%  Similarity=0.096  Sum_probs=27.3

Q ss_pred             cCCcEEEEEEECCChhhHH-------HH-HHHHHHHhhhcCCCC-eEEEEeeCCCCCCC
Q 038356            9 RGALGALLVYDVTKSTTFE-------NV-SRWLKDLGDHADSNI-VIMMIGNKTDLKHL   58 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~-------~~-~~~~~~~~~~~~~~~-~~~lvgnK~Dl~~~   58 (78)
                      +.+|++|+|.|.+.- -|+       .. ++|. ..+.   -++ +++++-||+|+.+.
T Consensus       106 ~~~D~ailvvda~~G-~~e~g~~~~~QT~eh~~-~~~~---~gv~~iiv~iNKmD~~~~  159 (239)
T d1f60a3         106 SQADCAILIIAGGVG-EFEAGISKDGQTREHAL-LAFT---LGVRQLIVAVNKMDSVKW  159 (239)
T ss_dssp             SCCSEEEEEEECSHH-HHHHHTCTTSHHHHHHH-HHHH---TTCCEEEEEEECGGGGTT
T ss_pred             HHhCEEEEEEECCCC-ccccccCchHhHHHHHH-HHHH---cCCCeEEEEEECCCCCCC
Confidence            578999999998642 111       12 2332 2222   234 47889999998653

>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=83.32  E-value=1.2  Score=24.59  Aligned_cols=48  Identities=15%  Similarity=-0.024  Sum_probs=27.8

Q ss_pred             CCcEEEEEEECC---ChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCCCCCC
Q 038356           10 GALGALLVYDVT---KSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDLKHLP   59 (78)
Q Consensus        10 ~a~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl~~~~   59 (78)
                      ..++++++.|..   ++.++....-........  -..|.+++.||+|+....
T Consensus       123 ~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~--~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1         123 PYPLVVYISDPEILKKPNDYCFVRFFALLIDLR--LGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             SSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH--HTSCEEEEECCGGGCCHH
T ss_pred             cCceEEEEeccccccCchhHhhHHHHHHHHHHH--hCCCceeeeeccccccHH
Confidence            345778888754   444443332221122111  357899999999997643

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.92  E-value=1.1  Score=27.68  Aligned_cols=41  Identities=7%  Similarity=-0.048  Sum_probs=25.0

Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            9 RGALGALLVYDVTKSTTFENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      ..+|.++++.|..-.+.  . ......+++   .+.|+++|.||+|.
T Consensus       134 ~~~d~~l~~~~~~~~~~--d-~~l~~~l~~---~~k~~~~V~nK~D~  174 (400)
T d1tq4a_         134 YEYDFFIIISATRFKKN--D-IDIAKAISM---MKKEFYFVRTKVDS  174 (400)
T ss_dssp             GGCSEEEEEESSCCCHH--H-HHHHHHHHH---TTCEEEEEECCHHH
T ss_pred             hcceEEEEecCCCCCHH--H-HHHHHHHHH---cCCCEEEEEeCccc
Confidence            56777877765332221  1 233344443   35799999999995

>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=81.49  E-value=3.2  Score=23.69  Aligned_cols=46  Identities=20%  Similarity=0.149  Sum_probs=26.3

Q ss_pred             cCCcEEEEEEECCChh---hHH---HHHHHHHHHhhhcCCCC-eEEEEeeCCCCCC
Q 038356            9 RGALGALLVYDVTKST---TFE---NVSRWLKDLGDHADSNI-VIMMIGNKTDLKH   57 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~---s~~---~~~~~~~~~~~~~~~~~-~~~lvgnK~Dl~~   57 (78)
                      ..+|++++|.|...-.   +++   ..+.-+..+..   .++ +++++-||+|+..
T Consensus       124 ~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~---~~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3         124 SQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEPS  176 (245)
T ss_dssp             TSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTSTT
T ss_pred             hhhcceeeEEEcCCCccCCccccccchHHHHHHHHH---cCCCeEEEEEEcCCCCc
Confidence            4689999999987521   110   11111111221   233 4778899999864

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=80.22  E-value=1  Score=24.01  Aligned_cols=47  Identities=19%  Similarity=0.237  Sum_probs=32.7

Q ss_pred             cCCcEEEEEEECCChh------h----HHHHHHHHHHHhhhcCCCCeEEEEeeCCCC
Q 038356            9 RGALGALLVYDVTKST------T----FENVSRWLKDLGDHADSNIVIMMIGNKTDL   55 (78)
Q Consensus         9 ~~a~~~ilv~d~~~~~------s----~~~~~~~~~~~~~~~~~~~~~~lvgnK~Dl   55 (78)
                      +++|.+++.-.....+      -    ..-++++.+.+.++++++.-+++++|-+|.
T Consensus        79 ~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvDv  135 (154)
T d1y7ta1          79 KDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPANT  135 (154)
T ss_dssp             TTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHHH
T ss_pred             ccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHHH
Confidence            7899999987655432      1    222367777777777667788888988774