Psyllid ID: psy16649

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80---
Protein Sequence
SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Secondary Structure (PSIPRED)
ccccEEEEEEEcccccEEEEEEEEEcccccHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEcc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEE
Coil and Loop (DISEMBL)
SGENLCTLQIFRGcfqhnfhinyrdtagQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Flexible Loop (DISEMBL)
SGENLCTLQIFRGCFQHNFHInyrdtagqeRFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEnasanvekmllgn
Low Complexity Region (SEG)
SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Disordered region (IsUnstruct)
****LCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIE**************
Disordered Region (DISOPRED)
*****CT*QIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Disordered Region (DISEMBL)
SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Disordered Region (DISPRO)
SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	83	2.2.26 [Sep-21-2011]
Q5R4A3	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
P35280	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
P55258	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
Q4R5P1	207	Ras-related protein Rab-8	N/A	N/A	0.710	0.285	0.932	1e-26
P61006	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
P61007	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
A4FV54	207	Ras-related protein Rab-8	yes	N/A	0.710	0.285	0.932	1e-26
P70550	207	Ras-related protein Rab-8	no	N/A	0.710	0.285	0.915	2e-26
P61028	207	Ras-related protein Rab-8	no	N/A	0.710	0.285	0.915	2e-26
Q92930	207	Ras-related protein Rab-8	no	N/A	0.710	0.285	0.915	3e-26

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

 Score =  118 bits (296), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.
Pongo abelii (taxid: 9601)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Rattus norvegicus (taxid: 10116)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Mus musculus (taxid: 10090)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Macaca fascicularis (taxid: 9541)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Homo sapiens (taxid: 9606)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Canis familiaris (taxid: 9615)

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

Bos taurus (taxid: 9913)

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

 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/59 (91%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE+AS++VE+M+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGN 121

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

Rattus norvegicus (taxid: 10116)

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

 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/59 (91%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE+AS++VE+M+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGN 121

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

Mus musculus (taxid: 10090)

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

 Score =  117 bits (292), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 54/59 (91%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE+AS++VE+M+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGN 121

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

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	83
395513679	331	PREDICTED: ras-related protein Rab-8A [S	0.710	0.178	0.932	2e-26
328793458	152	PREDICTED: ras-related protein Rab-8A-li	0.759	0.414	0.904	4e-26
47225622	592	unnamed protein product [Tetraodon nigro	0.710	0.099	0.915	4e-26
328725761	225	PREDICTED: ras-related protein Rab-8A-li	0.710	0.262	0.966	5e-26
242018600	210	conserved hypothetical protein [Pediculu	0.710	0.280	0.966	5e-26
270010835	208	hypothetical protein TcasGA2_TC014518 [T	0.710	0.283	0.966	8e-26
345480659	210	PREDICTED: ras-related protein Rab-8A-li	0.710	0.280	0.949	8e-26
156551213	209	PREDICTED: ras-related protein Rab-8A-li	0.710	0.282	0.949	9e-26
383864075	210	PREDICTED: ras-related protein Rab-8A-li	0.710	0.280	0.949	9e-26
383864073	209	PREDICTED: ras-related protein Rab-8A-li	0.710	0.282	0.949	9e-26

>gi|395513679|ref|XP_003761050.1| PREDICTED: ras-related protein Rab-8A [Sarcophilus harrisii]

 Score =  123 bits (308), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 187 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 245

Source: Sarcophilus harrisii

Species: Sarcophilus harrisii

Genus: Sarcophilus

Family: Dasyuridae

Order: Dasyuromorphia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

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

 Score =  122 bits (305), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 57/63 (90%), Positives = 61/63 (96%)

Query: 21 INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKML 80
          +N  DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSF+NIKNWIRNIEENASA+VEKML
Sbjct: 1  MNIWDTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFENIKNWIRNIEENASADVEKML 60

Query: 81 LGN 83
          LGN
Sbjct: 61 LGN 63

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|47225622|emb|CAG07965.1| unnamed protein product [Tetraodon nigroviridis]

 Score =  122 bits (305), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 54/59 (91%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE+AS++VE+M+LGN
Sbjct: 192 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGN 250

Source: Tetraodon nigroviridis

Species: Tetraodon nigroviridis

Genus: Tetraodon

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|328725761|ref|XP_001950584.2| PREDICTED: ras-related protein Rab-8A-like [Acyrthosiphon pisum]

 Score =  121 bits (304), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 57/59 (96%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSFDNIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFDNIKNWIRNIEENASADVEKMLLGN 121

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242018600|ref|XP_002429762.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212514774|gb|EEB17024.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score =  121 bits (303), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 57/59 (96%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 65  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFENIKNWIRNIEENASADVEKMLLGN 123

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  120 bits (302), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 57/59 (96%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFENIKNWIRNIEENASADVEKMLLGN 121

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345480659|ref|XP_003424189.1| PREDICTED: ras-related protein Rab-8A-like isoform 2 [Nasonia vitripennis]

 Score =  120 bits (302), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFENIKNWIRNIEENASADVEKMLLGN 121

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156551213|ref|XP_001600682.1| PREDICTED: ras-related protein Rab-8A-like isoform 1 [Nasonia vitripennis]

 Score =  120 bits (302), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFENIKNWIRNIEENASADVEKMLLGN 121

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  120 bits (302), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFENIKNWIRNIEENASADVEKMLLGN 121

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  120 bits (301), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYD+TNEKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDVTNEKSFENIKNWIRNIEENASADVEKMLLGN 121

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	83
ZFIN|ZDB-GENE-070424-36	210	rab8a "RAB8A, member RAS oncog	0.710	0.280	0.949	6.6e-26
FB|FBgn0262518	207	Rab8 "Rab8" [Drosophila melano	0.710	0.285	0.949	1.4e-25
UNIPROTKB|A4FV54	207	RAB8A "Ras-related protein Rab	0.710	0.285	0.932	1.4e-25
UNIPROTKB|J9NWR1	228	RAB8A "Ras-related protein Rab	0.710	0.258	0.932	1.4e-25
UNIPROTKB|P61007	207	RAB8A "Ras-related protein Rab	0.710	0.285	0.932	1.4e-25
UNIPROTKB|B4DEK7	207	RAB8A "cDNA FLJ53028, highly s	0.710	0.285	0.932	1.4e-25
UNIPROTKB|P61006	207	RAB8A "Ras-related protein Rab	0.710	0.285	0.932	1.4e-25
UNIPROTKB|F2Z5I8	207	RAB8A "Uncharacterized protein	0.710	0.285	0.932	1.4e-25
UNIPROTKB|Q4R5P1	207	RAB8A "Ras-related protein Rab	0.710	0.285	0.932	1.4e-25
UNIPROTKB|Q5R4A3	207	RAB8A "Ras-related protein Rab	0.710	0.285	0.932	1.4e-25

ZFIN|ZDB-GENE-070424-36 rab8a "RAB8A, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 293 (108.2 bits), Expect = 6.6e-26, P = 6.6e-26
 Identities = 56/59 (94%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASADVEKMILGN 121

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0035845 "photoreceptor cell outer segment organization" evidence=IGI;IMP

GO:0032402 "melanosome transport" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 56/59 (94%), Positives = 58/59 (98%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDIT EKSF+NIKNWIRNIEENASA+VEKMLLGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITQEKSFENIKNWIRNIEENASADVEKMLLGN 121

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

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

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

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

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

GO:0042384 "cilium assembly" evidence=IEA

GO:0031513 "nonmotile primary cilium" evidence=IEA

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

GO:0005932 "microtubule basal body" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|J9NWR1 RAB8A "Ras-related protein Rab-8A" [Canis lupus familiaris (taxid:9615)]

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

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

GO:0042995 "cell projection" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

UNIPROTKB|B4DEK7 RAB8A "cDNA FLJ53028, highly similar to Ras-related protein Rab-8A" [Homo sapiens (taxid:9606)]

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

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

GO:0015031 "protein transport" evidence=IEA

GO:0005932 "microtubule basal body" evidence=IEA

GO:0014069 "postsynaptic density" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0043025 "neuronal cell body" evidence=IEA

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

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

GO:0055037 "recycling endosome" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0005525 "GTP binding" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

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

GO:0031513 "nonmotile primary cilium" evidence=IDA

GO:0042384 "cilium assembly" evidence=IDA

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

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

GO:0055037 "recycling endosome" evidence=IEA

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

GO:0042384 "cilium assembly" evidence=IEA

GO:0031513 "nonmotile primary cilium" evidence=IEA

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

GO:0005932 "microtubule basal body" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

GO:0005525 "GTP binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query:    25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
             DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct:    63 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

GO:0005525 "GTP binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P61007	RAB8A_CANFA	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
P61006	RAB8A_HUMAN	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
P70550	RAB8B_RAT	No assigned EC number	0.9152	0.7108	0.2850	no	N/A
P61028	RAB8B_MOUSE	No assigned EC number	0.9152	0.7108	0.2850	no	N/A
P41924	RYL1_YARLI	No assigned EC number	0.7118	0.7108	0.2906	yes	N/A
Q5REC9	RAB8B_PONAB	No assigned EC number	0.9152	0.7108	0.2850	no	N/A
Q5R4A3	RAB8A_PONAB	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
P20790	RAB8A_DICDI	No assigned EC number	0.7966	0.7108	0.2836	yes	N/A
Q2HJI8	RAB8B_BOVIN	No assigned EC number	0.9152	0.7108	0.2850	no	N/A
O42819	SEC4_CANGA	No assigned EC number	0.6440	0.7108	0.2744	yes	N/A
A4FV54	RAB8A_BOVIN	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
O24466	RAE1A_ARATH	No assigned EC number	0.7796	0.7108	0.2731	yes	N/A
P35280	RAB8A_RAT	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
P17609	YPT2_SCHPO	No assigned EC number	0.7118	0.7108	0.295	yes	N/A
P07560	SEC4_YEAST	No assigned EC number	0.6440	0.7108	0.2744	yes	N/A
P55258	RAB8A_MOUSE	No assigned EC number	0.9322	0.7108	0.2850	yes	N/A
P28186	RAE1C_ARATH	No assigned EC number	0.7966	0.7108	0.2731	yes	N/A
Q4R5P1	RAB8A_MACFA	No assigned EC number	0.9322	0.7108	0.2850	N/A	N/A
Q92930	RAB8B_HUMAN	No assigned EC number	0.9152	0.7108	0.2850	no	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	83
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	3e-41
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	3e-35
pfam00071	162	pfam00071, Ras, Ras family	1e-31
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-31
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-29
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-27
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	4e-24
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	8e-24
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	2e-22
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	2e-22
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	4e-22
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-21
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	4e-21
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	4e-21
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-21
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	9e-21
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-20
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	4e-20
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	9e-20
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-19
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	9e-19
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-18
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-18
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-17
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	4e-17
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	5e-17
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-16
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-14
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-14
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-13
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	4e-13
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	6e-13
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	7e-12
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-11
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-10
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	4e-09
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	4e-09
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	3e-08
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	4e-08
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	1e-07
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-07
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-07
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	2e-07
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	3e-07
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	4e-07
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	4e-07
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	5e-07
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	5e-07
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	6e-07
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	1e-06
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	1e-06
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-06
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	3e-06
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-06
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	5e-06
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	5e-06
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	6e-06
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	6e-06
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	9e-06
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-05
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-05
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	2e-05
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	5e-05
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	6e-05
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	1e-04
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	4e-04
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	6e-04
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	7e-04
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	7e-04
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	0.003
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	0.003
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	0.004

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

 Score =  132 bits (333), Expect = 3e-41
 Identities = 48/59 (81%), Positives = 58/59 (98%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITT+YYRGAMGI+LVYDIT+EKSF+NIKNW+RNI+E+AS +VE+ML+GN
Sbjct: 58  DTAGQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGN 116

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

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

 Score =  116 bits (294), Expect = 3e-35
 Identities = 38/59 (64%), Positives = 51/59 (86%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+IT++YYRGA+G +LVYDITN +SF+N++NW++ + E AS NV  ML+GN
Sbjct: 55  DTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGN 113

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  107 bits (269), Expect = 1e-31
 Identities = 33/59 (55%), Positives = 42/59 (71%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR +   YYRGA G +LVYDIT+  SF+N+K W+  I  +A  NV  +L+GN
Sbjct: 54  DTAGQERFRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGN 112

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 =  106 bits (268), Expect = 2e-31
 Identities = 33/59 (55%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+IT++YYRGA G +LVYD+TN +SF+N+  W+  ++E A  N+  +L+GN
Sbjct: 55  DTAGQERFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGN 113

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

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

 Score =  100 bits (252), Expect = 6e-29
 Identities = 37/59 (62%), Positives = 52/59 (88%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 57  DTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 115

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

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

 Score = 96.5 bits (241), Expect = 3e-27
 Identities = 32/59 (54%), Positives = 49/59 (83%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDIT + +F+N++ W++ + ++A +N+  ML+GN
Sbjct: 58  DTAGQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGN 116

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

 Score = 88.6 bits (220), Expect = 4e-24
 Identities = 31/59 (52%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT +YYR A G ++ YDIT   SF+++ +WI  +E+  ++NV  +L+GN
Sbjct: 58  DTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGN 116

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

 Score = 87.8 bits (218), Expect = 8e-24
 Identities = 31/60 (51%), Positives = 46/60 (76%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN 83
           DTAGQERFRT+T++YYRGA G++LVYD+T   +FDN+  W+  ++  + + +  KML+GN
Sbjct: 55  DTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGN 114

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

 Score = 84.2 bits (208), Expect = 2e-22
 Identities = 35/59 (59%), Positives = 48/59 (81%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 56  DTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGN 114

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 85.4 bits (211), Expect = 2e-22
 Identities = 33/59 (55%), Positives = 48/59 (81%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDIT  ++FDN++ W+R + ++A +N+  M+ GN
Sbjct: 67  DTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGN 125

Length = 216

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

 Score = 84.3 bits (208), Expect = 4e-22
 Identities = 33/59 (55%), Positives = 48/59 (81%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF +IT+AYYR A GI+LVYDIT +++FD++  W++ I++ AS + E +L+GN
Sbjct: 55  DTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGN 113

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

 Score = 83.0 bits (205), Expect = 1e-21
 Identities = 35/59 (59%), Positives = 46/59 (77%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T AYYR A  ++L+YD+TN+ SFDNI+ W+  I E A ++V  MLLGN
Sbjct: 56  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGN 114

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

 Score = 81.8 bits (202), Expect = 4e-21
 Identities = 35/59 (59%), Positives = 47/59 (79%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT+ YYRG  G+++VYD+TN +SF N+K W++ IE+N    V K+L+GN
Sbjct: 61  DTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDD-VCKVLVGN 118

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

 Score = 81.4 bits (201), Expect = 4e-21
 Identities = 31/68 (45%), Positives = 51/68 (75%), Gaps = 1/68 (1%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SAN 75
              H+   DTAGQERFR++TTA++R AMG +L++D+T+E+SF N++NW+  ++ +A   N
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCEN 120

Query: 76  VEKMLLGN 83
            + +L+GN
Sbjct: 121 PDIVLIGN 128

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

 Score = 80.7 bits (200), Expect = 4e-21
 Identities = 28/59 (47%), Positives = 43/59 (72%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R++   YYRGA   ++VYDIT+E+SF+  K+W++ ++E+   N+   L GN
Sbjct: 56  DTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGN 114

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

 Score = 79.9 bits (197), Expect = 9e-21
 Identities = 32/59 (54%), Positives = 43/59 (72%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+IT +YYR A  ++L YDIT E+SF  +  W+R IE+ A+  V  +L+GN
Sbjct: 62  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGN 120

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

 Score = 79.8 bits (197), Expect = 3e-20
 Identities = 24/47 (51%), Positives = 38/47 (80%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN 71
           DTAGQERFR+IT +YYR ++G++LV+DITN +SF+++ +W+     +
Sbjct: 58  DTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSH 104

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

 Score = 78.2 bits (193), Expect = 4e-20
 Identities = 31/59 (52%), Positives = 45/59 (76%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ +SF+ + NW+ +    AS ++  +L+GN
Sbjct: 55  DTAGQERFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGN 113

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

 Score = 77.5 bits (191), Expect = 9e-20
 Identities = 29/59 (49%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE FR+IT +YYRGA G +LVYDIT  ++F+++ +W+ +  +++++N+  ML+GN
Sbjct: 59  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGN 117

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

 Score = 77.3 bits (190), Expect = 1e-19
 Identities = 33/63 (52%), Positives = 47/63 (74%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKML 80
           I   DTAGQER++TIT  YYR A GI LVYDI++E+S+ +I  W+ +++E A   V+K+L
Sbjct: 51  IQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKIL 110

Query: 81  LGN 83
           +GN
Sbjct: 111 IGN 113

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 75.7 bits (186), Expect = 9e-19
 Identities = 31/59 (52%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE FR+IT +YYRGA G +LVYDIT  ++F+++ +W+ +  ++A+AN+  ML+GN
Sbjct: 61  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGN 119

Length = 210

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

 Score = 73.0 bits (180), Expect = 4e-18
 Identities = 27/59 (45%), Positives = 40/59 (67%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN +SFDN   WI ++ +    +V  +L+GN
Sbjct: 55  DTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGN 113

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

 Score = 73.4 bits (180), Expect = 4e-18
 Identities = 35/59 (59%), Positives = 43/59 (72%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DT+GQ RF TI  +Y RGA GI+LVYDITN  SFD I  WI+ I+E+A   V K+L+GN
Sbjct: 61  DTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPG-VPKILVGN 118

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 72.4 bits (177), Expect = 2e-17
 Identities = 31/61 (50%), Positives = 46/61 (75%), Gaps = 2/61 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIE-ENASANVEKMLLG 82
           DTAGQERFRT+T++YYR A GI+LVYD+T  ++F N+ + W + +E  + + +  KML+G
Sbjct: 68  DTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVG 127

Query: 83  N 83
           N
Sbjct: 128 N 128

Length = 211

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

 Score = 70.7 bits (174), Expect = 4e-17
 Identities = 26/59 (44%), Positives = 39/59 (66%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+  +   YYR A G +LVYDIT+  SF  +K WI+ +++    N+  +++GN
Sbjct: 55  DTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGN 113

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

 Score = 70.3 bits (172), Expect = 5e-17
 Identities = 26/59 (44%), Positives = 40/59 (67%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR +T +YYRGA G ++VYDIT   +++++ +W+ +     + N    L+GN
Sbjct: 57  DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGN 115

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

 Score = 67.7 bits (166), Expect = 5e-16
 Identities = 27/58 (46%), Positives = 38/58 (65%), Gaps = 13/58 (22%)

Query: 7  TLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
          TLQI+             DTAGQERF+++  A+YRGA   +LVYD+TN KSF+++ +W
Sbjct: 50 TLQIW-------------DTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSW 94

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

 Score = 65.0 bits (158), Expect = 2e-14
 Identities = 27/60 (45%), Positives = 39/60 (65%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITN-EKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE +R++   YYRGA GI++VYD T  E S +  + W+  + E A  +V  +L+GN
Sbjct: 60  DTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGN 119

Length = 219

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

 Score = 62.5 bits (152), Expect = 7e-14
 Identities = 27/61 (44%), Positives = 41/61 (67%), Gaps = 2/61 (3%)

Query: 25  DTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEKMLLG 82
           DTAGQERFR ++   YYR    ++ VYD+TN  SF ++ +WI   E+++  N V ++L+G
Sbjct: 57  DTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVG 116

Query: 83  N 83
           N
Sbjct: 117 N 117

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

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

 Score = 61.9 bits (151), Expect = 2e-13
 Identities = 21/63 (33%), Positives = 36/63 (57%), Gaps = 4/63 (6%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE----NASANVEKML 80
           D AGQERF  +T  YY+GA+G ++V+D+T   +F+ +  W  +++          +  +L
Sbjct: 56  DIAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALL 115

Query: 81  LGN 83
           L N
Sbjct: 116 LAN 118

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

 Score = 60.1 bits (146), Expect = 4e-13
 Identities = 23/46 (50%), Positives = 31/46 (67%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE 70
           DTAGQE F  IT AYYRGA   +LV+  T+ +SF+ I++W   +E 
Sbjct: 57  DTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEA 102

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

 Score = 59.9 bits (145), Expect = 6e-13
 Identities = 26/65 (40%), Positives = 44/65 (67%), Gaps = 1/65 (1%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRN-IEENASANVE 77
           F +   DTAGQERF+ I + YYRGA  I++V+D+T+  S ++ + W+ + ++EN  ++V 
Sbjct: 49  FSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVL 108

Query: 78  KMLLG 82
             L+G
Sbjct: 109 LFLVG 113

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

 Score = 56.8 bits (138), Expect = 7e-12
 Identities = 25/60 (41%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE F  +   Y R   G +LVY IT+ +SF+ IKN    I       +V  +L+GN
Sbjct: 53  DTAGQEEFSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGN 112

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 56.7 bits (136), Expect = 1e-11
 Identities = 27/59 (45%), Positives = 39/59 (66%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
          DTAGQERFR++  +Y R +   ++VYDITN +SF+N   WI++I      +V   L+GN
Sbjct: 35 DTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGN 93

Length = 176

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

 Score = 52.9 bits (127), Expect = 2e-10
 Identities = 19/51 (37%), Positives = 33/51 (64%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN 71
           +++ DTAGQERF+T+  +YY  A   +LV+D+T + ++ N+  W   + E 
Sbjct: 51  VDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY 101

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|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score = 49.9 bits (119), Expect = 4e-09
 Identities = 19/40 (47%), Positives = 29/40 (72%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
          DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW
Sbjct: 60 DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNW 99

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

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

 Score = 49.9 bits (119), Expect = 4e-09
 Identities = 18/47 (38%), Positives = 30/47 (63%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN 71
           DTAG ER+  ++  YYRGA   ++ YD+T+  SF+  K W++ ++  
Sbjct: 56  DTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNL 102

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

 Score = 47.9 bits (114), Expect = 3e-08
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 3/62 (4%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW---IRNIEENASANVEKMLL 81
           D  GQ+    +   Y  GA  + LVYDITN +SF+N+++W   ++ + E +    + +L+
Sbjct: 56  DIGGQQIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLV 115

Query: 82  GN 83
           GN
Sbjct: 116 GN 117

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

 Score = 47.5 bits (113), Expect = 4e-08
 Identities = 20/62 (32%), Positives = 39/62 (62%), Gaps = 3/62 (4%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW---IRNIEENASANVEKMLL 81
           DTAGQE +  +   + R   G +LVY IT+  +F+ ++ +   I+ +++ ++A+V  M++
Sbjct: 53  DTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIV 112

Query: 82  GN 83
           GN
Sbjct: 113 GN 114

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

 Score = 45.6 bits (109), Expect = 1e-07
 Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
            ++   DTAGQE +  +    Y      +L + + +  SF+N+K  W   I+     NV 
Sbjct: 48  VNLGLWDTAGQEEYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCP-NVP 106

Query: 78  KMLLGN 83
            +L+G 
Sbjct: 107 IILVGT 112

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

 Score = 45.7 bits (109), Expect = 2e-07
 Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 3/71 (4%)

Query: 15  FQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-- 72
               +H+   DTAGQ+ +  +   Y  G  G +LVY +T+ KSF+ +K  I +   +   
Sbjct: 45  KGQEYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKV-IYDKILDMLG 103

Query: 73  SANVEKMLLGN 83
             +V  +L+GN
Sbjct: 104 KESVPIVLVGN 114

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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 45.4 bits (108), Expect = 2e-07
 Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITN-EKSFDNIKN-WIRNIEENASANVEK 78
            N  DTAGQE +  I   YYR     + V+DI       + I     + I  +A + V  
Sbjct: 53  FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPI 112

Query: 79  MLLGN 83
           +L+GN
Sbjct: 113 ILVGN 117

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

 Score = 45.2 bits (107), Expect = 2e-07
 Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG E+F ++   Y +   G ++VY + N+++F +IK     I        V  +L+GN
Sbjct: 55  DTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGN 114

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

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

 Score = 45.1 bits (107), Expect = 3e-07
 Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 15  FQHNF---HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
           F  N      N  DTAGQE+F  +   YY      ++++D+T+  ++ N+ NW R+I
Sbjct: 51  FYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDI 107

Length = 215

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

 Score = 44.9 bits (106), Expect = 4e-07
 Identities = 19/65 (29%), Positives = 41/65 (63%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEK 78
           ++I+  DTAG+E+F  + + Y RGA  ++L YD++N +S + +++    + + A+ +   
Sbjct: 44  YNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLF 103

Query: 79  MLLGN 83
            ++GN
Sbjct: 104 AVVGN 108

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

 Score = 44.3 bits (105), Expect = 4e-07
 Identities = 13/55 (23%), Positives = 34/55 (61%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN 75
           +N+ D +G   +  +   +Y+   G++LVYD+T+ +SF+ + +W++ +++    +
Sbjct: 51  VNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPH 105

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

 Score = 44.3 bits (105), Expect = 5e-07
 Identities = 16/44 (36%), Positives = 24/44 (54%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
          DTAGQE F  +   Y R   G +LV+ +T+  SF+ +  +   I
Sbjct: 56 DTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQI 99

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

 Score = 44.1 bits (104), Expect = 5e-07
 Identities = 17/48 (35%), Positives = 27/48 (56%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA 72
           D+AGQE F  +    +     + +VYD+TNE SF+N   WI  +  ++
Sbjct: 59  DSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHS 106

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

 Score = 43.9 bits (104), Expect = 6e-07
 Identities = 16/44 (36%), Positives = 24/44 (54%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
          DTAGQE +  +   Y R   G + V+ I + KSF++I  +   I
Sbjct: 55 DTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQI 98

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

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

 Score = 43.3 bits (103), Expect = 1e-06
 Identities = 24/60 (40%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE F  +   Y R   G +LVY IT+ +SF+ IK +   I       +V  +L+GN
Sbjct: 54  DTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGN 113

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 = 42.9 bits (102), Expect = 1e-06
 Identities = 18/39 (46%), Positives = 23/39 (58%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN 63
          DTAGQE F  +   Y R   G +LVY IT+ +SF+ I  
Sbjct: 56 DTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAK 94

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

 Score = 42.8 bits (101), Expect = 1e-06
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 1/64 (1%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVEKM 79
           +N  DTAGQE +  I   Y+R   G +LV+ IT+ +SF  +     + +      NV  +
Sbjct: 50  LNILDTAGQEDYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLL 109

Query: 80  LLGN 83
           L+GN
Sbjct: 110 LVGN 113

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

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

 Score = 42.3 bits (99), Expect = 3e-06
 Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 8   LQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRN 67
           L          F  N  DTAGQE+F  +   YY      ++++D+T   ++ N+ NW R+
Sbjct: 35  LVFHTNRGPIRF--NVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRD 92

Query: 68  IEENASANVEKMLLGN 83
           +      N+  +L GN
Sbjct: 93  LVR-VCENIPIVLCGN 107

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

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

 Score = 41.7 bits (98), Expect = 4e-06
 Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 8/76 (10%)

Query: 1   SGENLCTLQIFRGCFQHNFH---INYRDTAGQERF-----RTITTAYYRGAMGIMLVYDI 52
           S     T        + +     +   DT G + F       +     RGA  I+LV D 
Sbjct: 26  SDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDS 85

Query: 53  TNEKSFDNIKNWIRNI 68
           T+ +S ++ K  I   
Sbjct: 86  TDRESEEDAKLLILRR 101

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

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

 Score = 41.4 bits (98), Expect = 5e-06
 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVEKMLLGN 83
           DTAGQE +  +    Y      ++ + + +  SF+N+K  W   ++     NV  +L+G 
Sbjct: 52  DTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGT 110

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 = 41.8 bits (98), Expect = 5e-06
 Identities = 16/37 (43%), Positives = 21/37 (56%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI 61
          DTAGQE +  +   Y R   G + VY IT+  SF+ I
Sbjct: 59 DTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEI 95

Length = 189

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

 Score = 41.0 bits (97), Expect = 6e-06
 Identities = 12/52 (23%), Positives = 23/52 (44%)

Query: 17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
           N      D  GQ++ R +   YY    G++ V D ++ +  +  KN +  +
Sbjct: 41 KNVKFTVWDVGGQDKIRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKL 92

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

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

 Score = 41.4 bits (97), Expect = 6e-06
 Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 3/61 (4%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRN--IEENASANVEKMLLG 82
           DTAG E+F  +   Y +   G  LVY IT ++SF+++++ +R   +    + +V  +L+G
Sbjct: 55  DTAGTEQFTAMRDLYIKNGQGFALVYSITAQQSFNDLQD-LREQILRVKDTEDVPMILVG 113

Query: 83  N 83
           N
Sbjct: 114 N 114

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

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

 Score = 40.7 bits (96), Expect = 9e-06
 Identities = 15/44 (34%), Positives = 28/44 (63%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
          DTAGQE+F  +   YY      ++++D+T+  ++ N+ NW R++
Sbjct: 55 DTAGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDL 98

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|219856 pfam08477, Miro, Miro-like protein

 Score = 39.3 bits (92), Expect = 2e-05
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 4/66 (6%)

Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF---DNIKNWIRNIEENASANVE 77
           +N  D  G+E  +     + + A  I+LVYD+T+ +S      +  W+ N+       + 
Sbjct: 50  LNIWDFGGREELKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNL-RKLGGKIP 108

Query: 78  KMLLGN 83
            +L+GN
Sbjct: 109 VILVGN 114

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

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

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE+F  +   YY      ++++D+T   ++ N+  W R++      N+  +L GN
Sbjct: 68  DTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCR-VCENIPIVLCGN 125

Length = 219

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

 Score = 40.0 bits (94), Expect = 2e-05
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 4/63 (6%)

Query: 25  DTAGQERFRT--ITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASA--NVEKML 80
           DT GQ++           R A G +LVY IT+  SFD +   ++ I E       +  +L
Sbjct: 53  DTPGQQQNEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVIL 112

Query: 81  LGN 83
           +GN
Sbjct: 113 VGN 115

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

 Score = 38.9 bits (91), Expect = 5e-05
 Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-W 64
          DTAGQE +  +    Y     I++ Y + N  S DN+++ W
Sbjct: 58 DTAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKW 98

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|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 39.1 bits (91), Expect = 6e-05
 Identities = 11/60 (18%), Positives = 31/60 (51%)

Query: 12  RGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN 71
           +G  + +F +   D +G ER++   + +Y    G++ V+D++  ++  +++ W   +   
Sbjct: 76  KGDSERDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAAT 135

Length = 334

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

 Score = 37.5 bits (87), Expect = 1e-04
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 5/62 (8%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN---IKNWIRNIEENASANVEKMLL 81
           DTAG E+F  +   Y +   G +LVY +T+E S +    ++  +  I+++   NV  +L+
Sbjct: 55  DTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDS--DNVPMVLV 112

Query: 82  GN 83
           GN
Sbjct: 113 GN 114

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

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

 Score = 36.4 bits (84), Expect = 4e-04
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 16  QHNFHINYRDTAGQ----ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           +  F++   D  G     E  ++    +Y    GI+ V+D+TN+KS  N+  W
Sbjct: 51  EKTFYVELWDVGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRW 103

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

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

 Score = 36.0 bits (83), Expect = 6e-04
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENASANVEKMLLGN 83
           DTAG E+F  +   Y +   G +LVY IT + +F+++++    I     + +V  +L+GN
Sbjct: 55  DTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGN 114

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

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

 Score = 35.6 bits (82), Expect = 7e-04
 Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 2/59 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-KNWIRNIEENASANVEKMLLG 82
           DTAGQE +  +    YRGA   +L + + ++ S++N+ K WI  +   A   V  +L+G
Sbjct: 55  DTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYA-PGVPIVLVG 112

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

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

 Score = 35.6 bits (82), Expect = 7e-04
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVEKMLL 81
           DTAGQE F  + +  Y     IML + + N  S +N+++ W+  I  +    V+ +L+
Sbjct: 54  DTAGQEEFDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCPG-VKLVLV 110

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

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

 Score = 33.9 bits (78), Expect = 0.003
 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 1/50 (2%)

Query: 20 HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNI 68
           +   DTAGQ+ F  +    Y      +L + + N  SF NI   WI  I
Sbjct: 49 RLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEI 98

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

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

 Score = 34.1 bits (78), Expect = 0.003
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF 58
          DTAGQ  F  +   Y R   G ++ Y +T+  SF
Sbjct: 56 DTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSF 89

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

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

 Score = 33.5 bits (77), Expect = 0.004
 Identities = 12/42 (28%), Positives = 23/42 (54%)

Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIR 66
          D  GQ  F  +     + A+ I+ ++D+T + + ++IK W R
Sbjct: 55 DLGGQREFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYR 96

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	83
KOG0084|consensus	205		100.0
KOG0092|consensus	200		100.0
KOG0094|consensus	221		99.98
KOG0078|consensus	207		99.97
KOG0098|consensus	216		99.97
KOG0086|consensus	214		99.97
KOG0087|consensus	222		99.97
KOG0079|consensus	198		99.97
KOG0093|consensus	193		99.97
KOG0080|consensus	209		99.97
KOG0095|consensus	213		99.97
KOG0083|consensus	192		99.96
KOG0088|consensus	218		99.96
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.96
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.96
KOG0394|consensus	210		99.95
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.95
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.95
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.95
KOG0081|consensus	219		99.95
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.95
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.95
KOG0393|consensus	198		99.94
KOG0091|consensus	213		99.94
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.94
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.94
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.94
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.94
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.93
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.93
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.93
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.93
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.93
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.92
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.92
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.92
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.92
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.92
KOG0097|consensus	215		99.92
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.92
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.92
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.92
PLN00023	334	GTP-binding protein; Provisional	99.92
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.92
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.92
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.92
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.91
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.91
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.91
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.91
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.91
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.91
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.91
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.91
PTZ00369	189	Ras-like protein; Provisional	99.91
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.91
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.91
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.91
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.91
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.91
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.9
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.9
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.9
PLN03110	216	Rab GTPase; Provisional	99.9
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.9
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.9
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.9
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.9
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.9
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.9
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.9
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.9
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.89
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.89
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.89
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.89
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.89
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.89
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.89
PLN00223	181	ADP-ribosylation factor; Provisional	99.89
KOG0395|consensus	196		99.89
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.88
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.88
PLN03108	210	Rab family protein; Provisional	99.88
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.88
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.88
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.88
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.88
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.87
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.87
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.87
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.87
PTZ00099	176	rab6; Provisional	99.87
PTZ00133	182	ADP-ribosylation factor; Provisional	99.87
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.87
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.87
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.87
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.87
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.86
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.86
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.86
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.85
PLN03118	211	Rab family protein; Provisional	99.85
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.85
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.85
COG1100	219	GTPase SAR1 and related small G proteins [General	99.85
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.85
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.85
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.85
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.84
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.84
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.84
KOG4252|consensus	246		99.84
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.83
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.83
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.83
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.82
KOG0070|consensus	181		99.82
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.82
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.82
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.82
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.81
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.81
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.81
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.8
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.79
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.78
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.78
KOG0096|consensus	216		99.77
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.77
KOG0075|consensus	186		99.76
KOG1673|consensus	205		99.74
KOG0073|consensus	185		99.74
KOG0071|consensus	180		99.72
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.72
KOG4423|consensus	229		99.71
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.71
KOG3883|consensus	198		99.68
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.68
KOG0074|consensus	185		99.66
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.63
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.62
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.59
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.57
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.57
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.57
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.56
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.55
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.52
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.52
KOG0076|consensus	197		99.51
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.49
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.48
PRK03003	472	GTP-binding protein Der; Reviewed	99.46
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.45
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.45
PRK12299	335	obgE GTPase CgtA; Reviewed	99.44
KOG1707|consensus	625		99.43
PRK04213	201	GTP-binding protein; Provisional	99.43
KOG0072|consensus	182		99.41
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.41
PRK03003	472	GTP-binding protein Der; Reviewed	99.4
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.39
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.38
cd00881	189	GTP_translation_factor GTP translation factor fami	99.37
PRK11058	426	GTPase HflX; Provisional	99.37
CHL00189	742	infB translation initiation factor 2; Provisional	99.36
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.36
PRK05306	787	infB translation initiation factor IF-2; Validated	99.33
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.32
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.32
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.3
PRK05433	600	GTP-binding protein LepA; Provisional	99.3
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.3
PRK00093	435	GTP-binding protein Der; Reviewed	99.29
PRK04004	586	translation initiation factor IF-2; Validated	99.26
PRK12297	424	obgE GTPase CgtA; Reviewed	99.24
PRK15494	339	era GTPase Era; Provisional	99.23
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.22
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.21
KOG0077|consensus	193		99.21
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.21
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.2
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.19
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.18
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.18
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.17
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.17
PRK10218	607	GTP-binding protein; Provisional	99.17
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.16
PRK13351	687	elongation factor G; Reviewed	99.16
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.15
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.15
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.13
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.13
COG2229	187	Predicted GTPase [General function prediction only	99.12
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.11
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.1
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.1
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.07
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.03
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.03
PRK12296	500	obgE GTPase CgtA; Reviewed	99.02
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.02
PRK12317	425	elongation factor 1-alpha; Reviewed	99.0
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.0
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.98
PRK12298	390	obgE GTPase CgtA; Reviewed	98.97
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.97
PRK00089	292	era GTPase Era; Reviewed	98.97
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.96
PRK00093	435	GTP-binding protein Der; Reviewed	98.95
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.95
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.91
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.87
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.83
PRK12740	668	elongation factor G; Reviewed	98.8
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.8
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.8
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.77
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.77
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.76
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.75
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.74
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.74
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.74
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.7
KOG0090|consensus	238		98.7
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.67
PRK14845	1049	translation initiation factor IF-2; Provisional	98.66
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.57
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.55
KOG0705|consensus	749		98.55
KOG3886|consensus	295		98.52
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.5
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.44
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.32
PRK12739	691	elongation factor G; Reviewed	98.32
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.25
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.25
PLN03126	478	Elongation factor Tu; Provisional	98.2
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.2
COG1160	444	Predicted GTPases [General function prediction onl	98.14
PRK09602	396	translation-associated GTPase; Reviewed	98.13
PLN00043	447	elongation factor 1-alpha; Provisional	98.09
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.08
KOG0468|consensus	971		98.07
COG3596	296	Predicted GTPase [General function prediction only	98.06
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.06
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.03
COG1159	298	Era GTPase [General function prediction only]	97.99
CHL00071	409	tufA elongation factor Tu	97.96
PRK00007	693	elongation factor G; Reviewed	97.92
PTZ00416	836	elongation factor 2; Provisional	97.91
PRK12736	394	elongation factor Tu; Reviewed	97.9
COG1084	346	Predicted GTPase [General function prediction only	97.87
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.87
COG0486	454	ThdF Predicted GTPase [General function prediction	97.8
PRK12735	396	elongation factor Tu; Reviewed	97.78
PLN03127	447	Elongation factor Tu; Provisional	97.77
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.71
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.7
KOG1423|consensus	379		97.63
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.63
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.63
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.62
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.59
COG2262	411	HflX GTPases [General function prediction only]	97.59
KOG3887|consensus	347		97.58
KOG1145|consensus	683		97.57
KOG1707|consensus	625		97.57
COG1163	365	DRG Predicted GTPase [General function prediction	97.52
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.47
KOG0082|consensus	354		97.45
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	97.43
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.41
KOG1489|consensus	366		97.41
PRK13768	253	GTPase; Provisional	97.4
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.4
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.31
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.26
PRK07560	731	elongation factor EF-2; Reviewed	97.14
KOG0462|consensus	650		97.12
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.11
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.11
PRK00049	396	elongation factor Tu; Reviewed	96.97
KOG1954|consensus	532		96.97
KOG1144|consensus	1064		96.96
PRK12289	352	GTPase RsgA; Reviewed	96.95
COG0218	200	Predicted GTPase [General function prediction only	96.9
PRK00098	298	GTPase RsgA; Reviewed	96.89
KOG3905|consensus	473		96.85
KOG1191|consensus	531		96.82
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	96.78
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.72
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	96.66
COG1217	603	TypA Predicted membrane GTPase involved in stress	96.64
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	96.63
PRK12288	347	GTPase RsgA; Reviewed	96.59
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	96.59
COG1160	444	Predicted GTPases [General function prediction onl	96.58
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	96.41
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	96.33
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	96.26
PTZ00258	390	GTP-binding protein; Provisional	96.24
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	96.24
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	96.21
PTZ00141	446	elongation factor 1- alpha; Provisional	96.21
PRK09866	741	hypothetical protein; Provisional	96.17
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	96.1
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	96.07
COG0536	369	Obg Predicted GTPase [General function prediction	95.93
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	95.78
KOG0099|consensus	379		95.74
KOG0465|consensus	721		95.72
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	95.62
KOG1532|consensus	366		95.29
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	95.24
PRK09601	364	GTP-binding protein YchF; Reviewed	95.16
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	95.0
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	94.86
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	94.83
KOG0458|consensus	603		94.66
KOG0464|consensus	753		94.57
cd03110	179	Fer4_NifH_child This protein family's function is	94.48
PF13173	128	AAA_14: AAA domain	94.12
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	94.1
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	93.85
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	93.79
KOG0467|consensus	887		93.55
COG3276	447	SelB Selenocysteine-specific translation elongatio	93.44
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	93.43
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	93.39
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	93.18
PHA02518	211	ParA-like protein; Provisional	93.14
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	93.1
cd03111	106	CpaE_like This protein family consists of proteins	93.02
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	93.02
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	92.88
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	92.65
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	92.64
cd01394	218	radB RadB. The archaeal protein radB shares simila	92.5
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	92.24
KOG4273|consensus	418		92.19
PRK09563	287	rbgA GTPase YlqF; Reviewed	92.08
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	91.99
COG1161	322	Predicted GTPases [General function prediction onl	91.76
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	91.76
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	91.55
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	91.22
TIGR02237	209	recomb_radB DNA repair and recombination protein R	90.79
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	90.76
KOG1486|consensus	364		90.71
PF14784	126	ECIST_Cterm: C-terminal domain of the ECSIT protei	90.22
COG1010	249	CobJ Precorrin-3B methylase [Coenzyme metabolism]	90.11
KOG0461|consensus	522		89.91
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	89.77
PRK13796	365	GTPase YqeH; Provisional	89.05
KOG1491|consensus	391		89.04
KOG1490|consensus	620		88.76
KOG0469|consensus	842		88.39
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	88.09
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	87.89
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	86.21
PRK02261	137	methylaspartate mutase subunit S; Provisional	86.0
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	85.66
KOG1143|consensus	591		85.54
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	85.52
PRK04195	482	replication factor C large subunit; Provisional	85.48
COG0012	372	Predicted GTPase, probable translation factor [Tra	85.31
PF10551	93	MULE: MULE transposase domain; InterPro: IPR018289	85.03
COG1660	286	Predicted P-loop-containing kinase [General functi	84.82
KOG0463|consensus	641		84.68
PF00004	132	AAA: ATPase family associated with various cellula	84.62
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	83.96
COG3523	1188	IcmF Type VI protein secretion system component Va	83.79
COG5258	527	GTPBP1 GTPase [General function prediction only]	83.75
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	83.57
COG4615	546	PvdE ABC-type siderophore export system, fused ATP	83.55
KOG0410|consensus	410		83.27
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	83.18
KOG0780|consensus	483		82.97
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	82.46
KOG2655|consensus	366		82.15
PF12327	95	FtsZ_C: FtsZ family, C-terminal domain; InterPro:	81.89
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	81.53
PF08468	155	MTS_N: Methyltransferase small domain N-terminal;	81.11
COG1162	301	Predicted GTPases [General function prediction onl	81.04
PHA02544	316	44 clamp loader, small subunit; Provisional	80.69
KOG2052|consensus	513		80.55
PRK04452	319	acetyl-CoA decarbonylase/synthase complex subunit	80.54
cd01844	177	SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SG	80.23

>KOG0084|consensus

Probab=100.00  E-value=5.2e-36  Score=172.53  Aligned_cols=83  Identities=51%  Similarity=0.874  Sum_probs=81.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||..+.|.                    +.++||||||+|||||+++..+|||+|||+|+|||+|+++||++
T Consensus        20 VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~   99 (205)
T KOG0084|consen   20 VGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNN   99 (205)
T ss_pred             cChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhh
Confidence            5999999999999998                    88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+++++++..+++|++||||
T Consensus       100 v~~Wi~Ei~~~~~~~v~~lLVGN  122 (205)
T KOG0084|consen  100 VKRWIQEIDRYASENVPKLLVGN  122 (205)
T ss_pred             HHHHHHHhhhhccCCCCeEEEee
Confidence            99999999999989999999998

>KOG0092|consensus

Probab=100.00  E-value=1.1e-33  Score=162.46  Aligned_cols=83  Identities=39%  Similarity=0.757  Sum_probs=80.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||+.+.|.                    ..+++.||||+|||||.++.+.|||+|+++|+|||+++.+||..
T Consensus        16 VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~   95 (200)
T KOG0092|consen   16 VGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEK   95 (200)
T ss_pred             CCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHH
Confidence            5999999999999998                    56999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|+++++++.++++.|.||||
T Consensus        96 aK~WvkeL~~~~~~~~vialvGN  118 (200)
T KOG0092|consen   96 AKNWVKELQRQASPNIVIALVGN  118 (200)
T ss_pred             HHHHHHHHHhhCCCCeEEEEecc
Confidence            99999999999989999999998

>KOG0094|consensus

Probab=99.98  E-value=1.4e-32  Score=158.45  Aligned_cols=83  Identities=33%  Similarity=0.625  Sum_probs=79.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||..+.|.                    ..+.||+|||+|||||+.+.+.|+|++.++|+|||+++++||++
T Consensus        33 VGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~  112 (221)
T KOG0094|consen   33 VGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFEN  112 (221)
T ss_pred             cchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHH
Confidence            5999999999999998                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCC-CceEEEEeC
Q psy16649         61 IKNWIRNIEENASA-NVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~-~~piilvgN   83 (83)
                      .++|++++++..++ ++.|+||||
T Consensus       113 t~kWi~dv~~e~gs~~viI~LVGn  136 (221)
T KOG0094|consen  113 TSKWIEDVRRERGSDDVIIFLVGN  136 (221)
T ss_pred             HHHHHHHHHhccCCCceEEEEEcc
Confidence            99999999987765 599999998

>KOG0078|consensus

Probab=99.97  E-value=3.2e-32  Score=158.26  Aligned_cols=83  Identities=61%  Similarity=0.994  Sum_probs=81.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.+|..+.|.                    ..++||+|||+|||+|+++...||++|+++++|||++++.||++
T Consensus        23 vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfen  102 (207)
T KOG0078|consen   23 VGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFEN  102 (207)
T ss_pred             CchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHH
Confidence            6999999999999998                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.++++.++++|++||||
T Consensus       103 i~~W~~~I~e~a~~~v~~~LvGN  125 (207)
T KOG0078|consen  103 IRNWIKNIDEHASDDVVKILVGN  125 (207)
T ss_pred             HHHHHHHHHhhCCCCCcEEEeec
Confidence            99999999999988999999998

>KOG0098|consensus

Probab=99.97  E-value=8.9e-32  Score=154.28  Aligned_cols=83  Identities=40%  Similarity=0.758  Sum_probs=80.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||..+.|+                    ++++|+||||+|||+|++++..||++|.++|||||+++++||+.
T Consensus        17 VGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~h   96 (216)
T KOG0098|consen   17 VGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNH   96 (216)
T ss_pred             ccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHH
Confidence            5999999999999998                    88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |..|+.+++++..+++.++|+||
T Consensus        97 L~~wL~D~rq~~~~NmvImLiGN  119 (216)
T KOG0098|consen   97 LTSWLEDARQHSNENMVIMLIGN  119 (216)
T ss_pred             HHHHHHHHHHhcCCCcEEEEEcc
Confidence            99999999999879999999998

>KOG0086|consensus

Probab=99.97  E-value=2.2e-31  Score=149.30  Aligned_cols=83  Identities=42%  Similarity=0.753  Sum_probs=80.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.+|..+.|.                    +.++||||||+|||+|++....||++|.+.++|||+++++||+.
T Consensus        20 tGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~Tsrdsfna   99 (214)
T KOG0086|consen   20 TGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNA   99 (214)
T ss_pred             CChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHH
Confidence            6999999999999987                    88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.+++...++++.++|+||
T Consensus       100 LtnWL~DaR~lAs~nIvviL~Gn  122 (214)
T KOG0086|consen  100 LTNWLTDARTLASPNIVVILCGN  122 (214)
T ss_pred             HHHHHHHHHhhCCCcEEEEEeCC
Confidence            99999999999999999999998

>KOG0087|consensus

Probab=99.97  E-value=2.6e-31  Score=154.52  Aligned_cols=83  Identities=42%  Similarity=0.801  Sum_probs=80.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .|||-|+.||..+.|.                    +.++.|||||+|||||+.+.+.||++|.|+++|||++++.||++
T Consensus        25 VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfen  104 (222)
T KOG0087|consen   25 VGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFEN  104 (222)
T ss_pred             cchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHH
Confidence            5999999999999998                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|+++++.+.+++++++||||
T Consensus       105 v~rWL~ELRdhad~nivimLvGN  127 (222)
T KOG0087|consen  105 VERWLKELRDHADSNIVIMLVGN  127 (222)
T ss_pred             HHHHHHHHHhcCCCCeEEEEeec
Confidence            99999999999989999999998

>KOG0079|consensus

Probab=99.97  E-value=2.8e-31  Score=148.00  Aligned_cols=82  Identities=45%  Similarity=0.838  Sum_probs=79.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .|||+|+.+|..+.|.                    ..++|+||||+|||+|+.+...||++.+++++|||+++.+||.+
T Consensus        19 VGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~N   98 (198)
T KOG0079|consen   19 VGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNN   98 (198)
T ss_pred             ccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHh
Confidence            5999999999999887                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++|+++++.++ +.+|.+||||
T Consensus        99 v~rWLeei~~nc-dsv~~vLVGN  120 (198)
T KOG0079|consen   99 VKRWLEEIRNNC-DSVPKVLVGN  120 (198)
T ss_pred             HHHHHHHHHhcC-ccccceeccc
Confidence            999999999988 6999999998

>KOG0093|consensus

Probab=99.97  E-value=1.7e-30  Score=144.73  Aligned_cols=83  Identities=46%  Similarity=0.817  Sum_probs=80.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++....|.                    +.++||||||+|||+|+.+...||++|+++|+|||++|++||.+
T Consensus        32 vGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~s  111 (193)
T KOG0093|consen   32 VGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNS  111 (193)
T ss_pred             ccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHH
Confidence            6999999999999887                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|..+++..+-.++|++||||
T Consensus       112 vqdw~tqIktysw~naqvilvgn  134 (193)
T KOG0093|consen  112 VQDWITQIKTYSWDNAQVILVGN  134 (193)
T ss_pred             HHHHHHHheeeeccCceEEEEec
Confidence            99999999999888999999998

>KOG0080|consensus

Probab=99.97  E-value=6.1e-31  Score=148.24  Aligned_cols=83  Identities=40%  Similarity=0.782  Sum_probs=79.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.+|..+.|.                    ..++|.||||+|||+|+.+.++||++|.++|+|||++++++|.+
T Consensus        22 VGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~k  101 (209)
T KOG0080|consen   22 VGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVK  101 (209)
T ss_pred             ccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHh
Confidence            5999999999999998                    77899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +..|++++..++ .+++..++|||
T Consensus       102 Ld~W~~Eld~Ystn~diikmlVgN  125 (209)
T KOG0080|consen  102 LDIWLKELDLYSTNPDIIKMLVGN  125 (209)
T ss_pred             HHHHHHHHHhhcCCccHhHhhhcc
Confidence            999999999987 47899999998

>KOG0095|consensus

Probab=99.97  E-value=2.9e-30  Score=144.40  Aligned_cols=83  Identities=43%  Similarity=0.771  Sum_probs=80.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .||||+..+|.++-|+                    +.++||||||+|||+|+++..+||+.|+++|++||++.+.||+.
T Consensus        18 vgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdc   97 (213)
T KOG0095|consen   18 VGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDC   97 (213)
T ss_pred             cCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhh
Confidence            5999999999999998                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|+.++.++....+..+||||
T Consensus        98 lpewlreie~yan~kvlkilvgn  120 (213)
T KOG0095|consen   98 LPEWLREIEQYANNKVLKILVGN  120 (213)
T ss_pred             hHHHHHHHHHHhhcceEEEeecc
Confidence            99999999999888999999998

>KOG0083|consensus

Probab=99.96  E-value=8e-30  Score=140.43  Aligned_cols=83  Identities=45%  Similarity=0.774  Sum_probs=78.7

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +||||++.||..+-|-                     +.++||||||+|||+|++....||+.||+.+++||++|+.||+
T Consensus         8 ~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfd   87 (192)
T KOG0083|consen    8 TGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFD   87 (192)
T ss_pred             cCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHH
Confidence            5999999999887775                     8899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++.|+.++.++....+.++|+||
T Consensus        88 n~~~wlsei~ey~k~~v~l~llgn  111 (192)
T KOG0083|consen   88 NCQAWLSEIHEYAKEAVALMLLGN  111 (192)
T ss_pred             HHHHHHHHHHHHHHhhHhHhhhcc
Confidence            999999999999878899999987

>KOG0088|consensus

Probab=99.96  E-value=8.3e-30  Score=143.58  Aligned_cols=83  Identities=36%  Similarity=0.697  Sum_probs=80.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||+..||..+.|.                    ....|.||||+|||+|..+-|.||++++++++|||++|++||+.
T Consensus        24 VGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqK  103 (218)
T KOG0088|consen   24 VGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQK  103 (218)
T ss_pred             cchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHH
Confidence            5999999999999998                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|..+++...+..+.+++|||
T Consensus       104 VKnWV~Elr~mlGnei~l~IVGN  126 (218)
T KOG0088|consen  104 VKNWVLELRTMLGNEIELLIVGN  126 (218)
T ss_pred             HHHHHHHHHHHhCCeeEEEEecC
Confidence            99999999999889999999998

>cd04120 Rab12 Rab12 subfamily

Probab=99.96  E-value=4.1e-29  Score=147.02  Aligned_cols=83  Identities=42%  Similarity=0.761  Sum_probs=77.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.+|..+.|.                    ..+++++|||+|+++|+.+++.|+++++++|+|||+++++||++
T Consensus        11 VGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~   90 (202)
T cd04120          11 VGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDD   90 (202)
T ss_pred             CCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            6999999999999885                    45889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++.+++...+++|++||||
T Consensus        91 l~~w~~~i~~~~~~~~piilVgN  113 (202)
T cd04120          91 LPKWMKMIDKYASEDAELLLVGN  113 (202)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999877667899999998

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

>cd04133 Rop_like Rop subfamily

Probab=99.96  E-value=1.3e-28  Score=142.35  Aligned_cols=82  Identities=27%  Similarity=0.528  Sum_probs=76.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|.                   ..++++||||+|+++|+.+++.|+++++++|+|||+++++||+++
T Consensus        12 vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~   91 (176)
T cd04133          12 VGKTCMLICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENV   91 (176)
T ss_pred             CcHHHHHHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHH
Confidence            6999999999999886                   569999999999999999999999999999999999999999998


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       +.|++++++.. +++|++||||
T Consensus        92 ~~~w~~~i~~~~-~~~piilvgn  113 (176)
T cd04133          92 LKKWVPELRHYA-PNVPIVLVGT  113 (176)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEe
Confidence             68999998776 5899999998

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,

>KOG0394|consensus

Probab=99.95  E-value=5.5e-29  Score=142.57  Aligned_cols=83  Identities=39%  Similarity=0.631  Sum_probs=77.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .|||||..||+.+.|.                    +.+.||||||+|||||+++.-.+||+||+++++||+++++||++
T Consensus        20 VGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~   99 (210)
T KOG0394|consen   20 VGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFEN   99 (210)
T ss_pred             ccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhcc
Confidence            5999999999999887                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC----CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS----ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~----~~~piilvgN   83 (83)
                      +..|.+++..+.+    ...|.||+||
T Consensus       100 L~~Wr~EFl~qa~~~~Pe~FPFVilGN  126 (210)
T KOG0394|consen  100 LENWRKEFLIQASPQDPETFPFVILGN  126 (210)
T ss_pred             HHHHHHHHHHhcCCCCCCcccEEEEcc
Confidence            9999999977653    5699999998

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.95  E-value=2.4e-28  Score=141.83  Aligned_cols=82  Identities=21%  Similarity=0.515  Sum_probs=76.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|.                   +.++++||||+|+++|..+++.|+++++++|+|||+++++||+++
T Consensus        16 vGKTsli~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~   95 (182)
T cd04172          16 CGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSV   95 (182)
T ss_pred             CCHHHHHHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHH
Confidence            6999999999998875                   568899999999999999999999999999999999999999997


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|++++++.. +++|++||||
T Consensus        96 ~~~w~~~i~~~~-~~~piilVgN  117 (182)
T cd04172          96 LKKWKGEIQEFC-PNTKMLLVGC  117 (182)
T ss_pred             HHHHHHHHHHHC-CCCCEEEEeE
Confidence             79999998876 6899999998

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

>cd01875 RhoG RhoG subfamily

Probab=99.95  E-value=3.4e-28  Score=141.84  Aligned_cols=82  Identities=23%  Similarity=0.475  Sum_probs=75.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|.                   ..++++||||+|+++|+.+++.|++++|++|+|||+++++||+++
T Consensus        14 vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~   93 (191)
T cd01875          14 VGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENV   93 (191)
T ss_pred             CCHHHHHHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHH
Confidence            7999999999999885                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      + .|.+++++.. +++|++||||
T Consensus        94 ~~~w~~~i~~~~-~~~piilvgN  115 (191)
T cd01875          94 RHKWHPEVCHHC-PNVPILLVGT  115 (191)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEEe
Confidence            7 6999887765 6899999998

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.95  E-value=4.6e-28  Score=141.34  Aligned_cols=82  Identities=45%  Similarity=0.737  Sum_probs=76.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.+|..+.|.                    ..++|++|||+|+++|+.+++.|+++++++|+|||+++++||++
T Consensus        17 vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~   96 (189)
T cd04121          17 VGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDG   96 (189)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            6999999999988764                    45899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++++.+.. +++|++||||
T Consensus        97 ~~~w~~~i~~~~-~~~piilVGN  118 (189)
T cd04121          97 IDRWIKEIDEHA-PGVPKILVGN  118 (189)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998776 6899999998

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

>KOG0081|consensus

Probab=99.95  E-value=7.4e-28  Score=135.80  Aligned_cols=83  Identities=42%  Similarity=0.790  Sum_probs=78.4

Q ss_pred             CCcceeeeeeccCccc-----------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-----------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d   51 (83)
                      +||||+++||..+.|.                             +.+.||+|||+|||+|+++...+|+.|-+++++||
T Consensus        20 VGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFD   99 (219)
T KOG0081|consen   20 VGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFD   99 (219)
T ss_pred             CCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEe
Confidence            5999999999999998                             78999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         52 ITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        52 ~~~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +++++||-++++|+.+++.+. ..++-|+|+||
T Consensus       100 lT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGN  132 (219)
T KOG0081|consen  100 LTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGN  132 (219)
T ss_pred             ccchHHHHHHHHHHHHHHHhhccCCCCEEEEcC
Confidence            999999999999999998865 47888999998

>cd04131 Rnd Rnd subfamily

Probab=99.95  E-value=8.1e-28  Score=139.11  Aligned_cols=82  Identities=20%  Similarity=0.512  Sum_probs=76.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|+                   ..+++++|||+|+++|..+++.++++++++|+|||+++++||+++
T Consensus        12 vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~   91 (178)
T cd04131          12 CGKTALLQVFAKDCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSV   91 (178)
T ss_pred             CCHHHHHHHHHhCcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHH
Confidence            6999999999998875                   568899999999999999999999999999999999999999996


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       +.|++++++.. +++|++||||
T Consensus        92 ~~~w~~~i~~~~-~~~~iilVgn  113 (178)
T cd04131          92 LKKWRGEIQEFC-PNTKVLLVGC  113 (178)
T ss_pred             HHHHHHHHHHHC-CCCCEEEEEE
Confidence             79999998876 6899999998

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.95  E-value=1.8e-27  Score=140.03  Aligned_cols=83  Identities=23%  Similarity=0.452  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc-------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||+.++..+.|.                         +.+.++||||+|+++|..+++.||++++++|+|||++++
T Consensus        11 VGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~   90 (202)
T cd04102          11 VGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNR   90 (202)
T ss_pred             CCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcCh
Confidence            6999999999888764                         246799999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhc-------------------CCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENA-------------------SANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~-------------------~~~~piilvgN   83 (83)
                      +||++++.|++++.+..                   ++++|++||||
T Consensus        91 ~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGn  137 (202)
T cd04102          91 KSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGT  137 (202)
T ss_pred             HHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEE
Confidence            99999999999997642                   35799999998

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.

>KOG0393|consensus

Probab=99.94  E-value=4.4e-27  Score=136.90  Aligned_cols=82  Identities=26%  Similarity=0.512  Sum_probs=78.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||+++..|..+.|+                    +.++|.+|||+|||.|..+++..|.++|.|++||++.+++||++
T Consensus        15 ~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~n   94 (198)
T KOG0393|consen   15 VGKTCLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFEN   94 (198)
T ss_pred             cCceEEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHH
Confidence            7999999999999998                    56889999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +. +|++++++++ +++|++|||+
T Consensus        95 v~~kW~pEi~~~c-p~vpiiLVGt  117 (198)
T KOG0393|consen   95 VKSKWIPEIKHHC-PNVPIILVGT  117 (198)
T ss_pred             HHhhhhHHHHhhC-CCCCEEEEee
Confidence            86 8999999999 8999999995

>KOG0091|consensus

Probab=99.94  E-value=2.3e-27  Score=134.13  Aligned_cols=83  Identities=39%  Similarity=0.727  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+..|..+.|.                     ..++||+|||+|||+|++++.+||+++-++++|||++|++||+
T Consensus        19 vgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfe   98 (213)
T KOG0091|consen   19 VGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFE   98 (213)
T ss_pred             ccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHH
Confidence            5999999999999997                     7899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      .++.|+++...+.+  ..+...|||.
T Consensus        99 hv~~w~~ea~m~~q~P~k~VFlLVGh  124 (213)
T KOG0091|consen   99 HVENWVKEAAMATQGPDKVVFLLVGH  124 (213)
T ss_pred             HHHHHHHHHHHhcCCCCeeEEEEecc
Confidence            99999999987653  4566667774

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

Probab=99.94  E-value=4.1e-27  Score=138.37  Aligned_cols=82  Identities=28%  Similarity=0.560  Sum_probs=76.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..++++||||+|+++|+.+++.||++++++|+|||+++++||++
T Consensus         6 vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~   85 (200)
T smart00176        6 TGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKN   85 (200)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHH
Confidence            7999999999988775                    46899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++++++.. +++|++||||
T Consensus        86 i~~w~~~i~~~~-~~~piilvgN  107 (200)
T smart00176       86 VPNWHRDLVRVC-ENIPIVLCGN  107 (200)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998876 6899999998

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.94  E-value=3.9e-27  Score=141.04  Aligned_cols=82  Identities=18%  Similarity=0.481  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|.                   ..++|+||||+|+++|..+++.||++|+++++|||+++++||+++
T Consensus        24 VGKTsLi~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~  103 (232)
T cd04174          24 CGKTAMLQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSA  103 (232)
T ss_pred             CcHHHHHHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHH
Confidence            6999999999988775                   568999999999999999999999999999999999999999985


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|++++++.. +++|++||||
T Consensus       104 ~~~w~~~i~~~~-~~~piilVgN  125 (232)
T cd04174         104 LKKWKAEIMDYC-PSTRILLIGC  125 (232)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence             89999998876 6799999998

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.94  E-value=9e-27  Score=134.28  Aligned_cols=82  Identities=21%  Similarity=0.457  Sum_probs=75.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..++++||||+|+++|..+++.++++++++|+|||+++++||+++
T Consensus        12 vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~   91 (175)
T cd01874          12 VGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENV   91 (175)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHH
Confidence            7999999999998884                   458899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++++++.. +++|++||||
T Consensus        92 ~~~w~~~i~~~~-~~~piilvgn  113 (175)
T cd01874          92 KEKWVPEITHHC-PKTPFLLVGT  113 (175)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            7 6999998765 6799999998

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.94  E-value=2.6e-26  Score=136.75  Aligned_cols=82  Identities=18%  Similarity=0.451  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.+|..+.|+                   +.++|+||||+|++.|..+++.+|+++|++|+|||+++++||+++
T Consensus        12 vGKTsLi~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i   91 (222)
T cd04173          12 CGKTALLQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSV   91 (222)
T ss_pred             CCHHHHHHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHH
Confidence            7999999999988876                   568999999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|.++++... +++|++||||
T Consensus        92 ~~~w~~~~~~~~-~~~piiLVgn  113 (222)
T cd04173          92 LKKWQGETQEFC-PNAKVVLVGC  113 (222)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEEE
Confidence             57888876665 7899999998

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=99.93  E-value=5.7e-26  Score=130.83  Aligned_cols=82  Identities=20%  Similarity=0.461  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..++|+||||+|+++|..+++.+++++|++|+|||+++++||+++
T Consensus        12 vGKSsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~   91 (174)
T cd01871          12 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENV   91 (174)
T ss_pred             CCHHHHHHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHH
Confidence            7999999998888775                   558899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.... +++|++||||
T Consensus        92 ~~~~~~~~~~~~-~~~piilvgn  113 (174)
T cd01871          92 RAKWYPEVRHHC-PNTPIILVGT  113 (174)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEee
Confidence            6 6999887765 6899999998

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.93  E-value=7.8e-26  Score=128.87  Aligned_cols=83  Identities=35%  Similarity=0.684  Sum_probs=76.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+++++|||+|+++++.++..++++++++++|||+++++||+.
T Consensus        13 vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   92 (166)
T cd04122          13 VGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNH   92 (166)
T ss_pred             CCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            7999999999887664                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....++.|+++|||
T Consensus        93 ~~~~~~~~~~~~~~~~~iiiv~n  115 (166)
T cd04122          93 LSSWLTDARNLTNPNTVIFLIGN  115 (166)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999877667899999998

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

>cd04128 Spg1 Spg1p

Probab=99.93  E-value=6.2e-26  Score=131.60  Aligned_cols=82  Identities=21%  Similarity=0.468  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.+|..+.|.                    ..+.|+||||+|+++|..+++.++++++++++|||+++++||++
T Consensus        11 vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~   90 (182)
T cd04128          11 IGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNS   90 (182)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHH
Confidence            6999999999888775                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++++..+..+| +||||
T Consensus        91 i~~~~~~~~~~~~~~~p-ilVgn  112 (182)
T cd04128          91 IKEWYRQARGFNKTAIP-ILVGT  112 (182)
T ss_pred             HHHHHHHHHHhCCCCCE-EEEEE
Confidence            99999999887656677 57887

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.93  E-value=1.6e-25  Score=127.34  Aligned_cols=83  Identities=42%  Similarity=0.756  Sum_probs=76.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+++++||++|+++|..+++.++++++++++|||+++++||++
T Consensus        11 ~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~   90 (161)
T cd04117          11 VGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQH   90 (161)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHH
Confidence            7999999999888775                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+..+.++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~~~iilvgn  113 (161)
T cd04117          91 IMKWVSDVDEYAPEGVQKILIGN  113 (161)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887656899999997

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.93  E-value=1.3e-25  Score=133.44  Aligned_cols=82  Identities=26%  Similarity=0.528  Sum_probs=76.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+++++|||+|+++|..+++.|+++++++|+|||+++++||++
T Consensus        24 vGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~  103 (219)
T PLN03071         24 TGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKN  103 (219)
T ss_pred             CCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHH
Confidence            7999999999888775                    45799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++++.. +++|++||||
T Consensus       104 i~~w~~~i~~~~-~~~piilvgN  125 (219)
T PLN03071        104 VPTWHRDLCRVC-ENIPIVLCGN  125 (219)
T ss_pred             HHHHHHHHHHhC-CCCcEEEEEE
Confidence            999999998776 6899999998

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

Probab=99.92  E-value=1.6e-25  Score=126.78  Aligned_cols=83  Identities=30%  Similarity=0.689  Sum_probs=78.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|+                    ..+.+++||++|+++|..+++.++++++++|+|||+++++||++
T Consensus        10 vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~   89 (162)
T PF00071_consen   10 VGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFEN   89 (162)
T ss_dssp             SSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHT
T ss_pred             CCHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            7999999999998877                    78899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++++....+.++|++||||
T Consensus        90 ~~~~~~~i~~~~~~~~~iivvg~  112 (162)
T PF00071_consen   90 LKKWLEEIQKYKPEDIPIIVVGN  112 (162)
T ss_dssp             HHHHHHHHHHHSTTTSEEEEEEE
T ss_pred             cccccccccccccccccceeeec
Confidence            99999999998866899999997

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 ....

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.92  E-value=2.7e-25  Score=127.79  Aligned_cols=83  Identities=25%  Similarity=0.494  Sum_probs=75.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|+.+++.++++++++++|||+++++||+.+
T Consensus        13 vGKTsL~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~   92 (172)
T cd04141          13 VGKSAVTMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEA   92 (172)
T ss_pred             CcHHHHHHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHH
Confidence            6999999999888875                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|.+.+.+.. .+++|+++|||
T Consensus        93 ~~~~~~i~~~~~~~~~piilvgN  115 (172)
T cd04141          93 SEFKKLITRVRLTEDIPLVLVGN  115 (172)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99998887753 36899999998

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.92  E-value=2.8e-25  Score=132.20  Aligned_cols=83  Identities=25%  Similarity=0.515  Sum_probs=76.2

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.|.               ..+.+.||||+|+++|..+++.|+++++++|+|||+++++||+++..|+
T Consensus        11 vGKTSLi~r~~~~~f~~~~~Tig~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~   90 (220)
T cd04126          11 VGKTSLLHRYMERRFKDTVSTVGGAFYLKQWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRF   90 (220)
T ss_pred             CcHHHHHHHHhcCCCCCCCCccceEEEEEEeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999999999885               3678999999999999999999999999999999999999999999988


Q ss_pred             HHHHHhcCCCceEEEEeC
Q psy16649         66 RNIEENASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+...+++|++||||
T Consensus        91 ~~l~~~~~~~~piIlVgN  108 (220)
T cd04126          91 LGLTDTANEDCLFAVVGN  108 (220)
T ss_pred             HHHHHhcCCCCcEEEEEE
Confidence            888776557899999998

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.92  E-value=4.6e-25  Score=126.61  Aligned_cols=83  Identities=31%  Similarity=0.653  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+++|||+|+++|..++..+++++|++++|||+++++||+.
T Consensus        11 vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~   90 (170)
T cd04108          11 VGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEH   90 (170)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            7999999999998885                    34689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ++.|++++.+.. +.++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~~~~iilVgn  114 (170)
T cd04108          91 TRQWLEDALKENDPSSVLLFLVGT  114 (170)
T ss_pred             HHHHHHHHHHhcCCCCCeEEEEEE
Confidence            999999987653 45689999998

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.92  E-value=3.3e-25  Score=128.96  Aligned_cols=82  Identities=27%  Similarity=0.499  Sum_probs=75.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.++||||+|+++|..+++.++++++++++|||+++++||+.+
T Consensus        11 vGKTsli~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~   90 (189)
T cd04134          11 CGKTSLLNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENV   90 (189)
T ss_pred             CCHHHHHHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHH
Confidence            7999999999888775                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++++.... +++|++||||
T Consensus        91 ~~~~~~~i~~~~-~~~piilvgN  112 (189)
T cd04134          91 ESKWLGEIREHC-PGVKLVLVAL  112 (189)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            7 6999998765 6899999998

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.

>KOG0097|consensus

Probab=99.92  E-value=1.6e-25  Score=124.69  Aligned_cols=83  Identities=35%  Similarity=0.684  Sum_probs=78.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.+|....|.                    +.++|+||||+|||+|+....+||+++.+.+.|||++.+.+++.
T Consensus        22 vgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstynh  101 (215)
T KOG0097|consen   22 VGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNH  101 (215)
T ss_pred             ccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhhh
Confidence            5999999999988776                    78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.+.+....|+..|+|+||
T Consensus       102 lsswl~dar~ltnpnt~i~lign  124 (215)
T KOG0097|consen  102 LSSWLTDARNLTNPNTVIFLIGN  124 (215)
T ss_pred             HHHHHhhhhccCCCceEEEEecc
Confidence            99999999988779999999998

>cd04144 Ras2 Ras2 subfamily

Probab=99.92  E-value=6.2e-25  Score=127.85  Aligned_cols=83  Identities=29%  Similarity=0.537  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..++..|++++|++|+|||+++++||+++
T Consensus        10 vGKTsli~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~   89 (190)
T cd04144          10 VGKTALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERV   89 (190)
T ss_pred             CCHHHHHHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHH
Confidence            7999999999887764                   347799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc---CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~---~~~~piilvgN   83 (83)
                      ..|++.+....   .+++|+++|||
T Consensus        90 ~~~~~~i~~~~~~~~~~~piilvgN  114 (190)
T cd04144          90 ERFREQIQRVKDESAADVPIMIVGN  114 (190)
T ss_pred             HHHHHHHHHHhcccCCCCCEEEEEE
Confidence            99999987654   25799999997

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=99.92  E-value=1.1e-24  Score=124.15  Aligned_cols=83  Identities=45%  Similarity=0.786  Sum_probs=76.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++|||+|++++..++..++++++++++|||+++++||++
T Consensus        12 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~   91 (165)
T cd01865          12 VGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNA   91 (165)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHH
Confidence            7999999999888764                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|+++|||
T Consensus        92 ~~~~~~~i~~~~~~~~piivv~n  114 (165)
T cd01865          92 VQDWSTQIKTYSWDNAQVILVGN  114 (165)
T ss_pred             HHHHHHHHHHhCCCCCCEEEEEE
Confidence            99999999887667899999997

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

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

Probab=99.92  E-value=8.7e-25  Score=125.08  Aligned_cols=82  Identities=21%  Similarity=0.451  Sum_probs=75.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..+++.+++++|++|+|||+++++||+++
T Consensus         9 vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~   88 (174)
T smart00174        9 VGKTCLLISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENV   88 (174)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHH
Confidence            7999999999888875                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.+.. +++|++||||
T Consensus        89 ~~~~~~~i~~~~-~~~piilv~n  110 (174)
T smart00174       89 KEKWYPEVKHFC-PNTPIILVGT  110 (174)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEec
Confidence            6 6999998766 6899999998

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.92  E-value=1e-24  Score=135.17  Aligned_cols=83  Identities=19%  Similarity=0.512  Sum_probs=74.0

Q ss_pred             CCcceeeeeeccCccc-------------e--------------------EEEEEEEeCCCchhhhcchhhhccCCcEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------H--------------------NFHINYRDTAGQERFRTITTAYYRGAMGIM   47 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~--------------------~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i   47 (83)
                      +|||||+.++..+.|.             +                    .+.++||||+|+++|+.+++.||++++++|
T Consensus        32 VGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~AdgiI  111 (334)
T PLN00023         32 VGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQINGVI  111 (334)
T ss_pred             CcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCEEE
Confidence            6999999999887664             1                    256899999999999999999999999999


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhcC------------CCceEEEEeC
Q psy16649         48 LVYDITNEKSFDNIKNWIRNIEENAS------------ANVEKMLLGN   83 (83)
Q Consensus        48 lv~d~~~~~s~~~~~~w~~~~~~~~~------------~~~piilvgN   83 (83)
                      +|||+++++||+++..|++++.+...            .++|++||||
T Consensus       112 LVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGN  159 (334)
T PLN00023        112 FVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGN  159 (334)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEE
Confidence            99999999999999999999987631            3599999998

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.92  E-value=1.2e-24  Score=127.63  Aligned_cols=83  Identities=30%  Similarity=0.634  Sum_probs=74.4

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+.+++|||+|+++|+.+++.++++++++|+|||+++++||+
T Consensus        11 vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~   90 (201)
T cd04107          11 VGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFE   90 (201)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHH
Confidence            7999999999887653                     2577899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      ++..|++++....    ..++|++||||
T Consensus        91 ~~~~~~~~i~~~~~~~~~~~~piilv~N  118 (201)
T cd04107          91 AVLKWKADLDSKVTLPNGEPIPCLLLAN  118 (201)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcEEEEEE
Confidence            9999999887642    36799999998

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.92  E-value=1.5e-24  Score=123.22  Aligned_cols=82  Identities=26%  Similarity=0.594  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++|||+|+++|..+++.+++++|++++|||++++.+|++
T Consensus        11 vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   90 (161)
T cd04124          11 VGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKN   90 (161)
T ss_pred             CCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHH
Confidence            7999999998877664                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++++++.. +++|+++|||
T Consensus        91 ~~~~~~~i~~~~-~~~p~ivv~n  112 (161)
T cd04124          91 LSKWYEELREYR-PEIPCIVVAN  112 (161)
T ss_pred             HHHHHHHHHHhC-CCCcEEEEEE
Confidence            999999998765 6799999998

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.92  E-value=1.3e-24  Score=122.94  Aligned_cols=83  Identities=31%  Similarity=0.569  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..+++.|+++++++++|||+++++||+++
T Consensus        12 vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   91 (163)
T cd04136          12 VGKSALTVQFVQGIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDL   91 (163)
T ss_pred             CCHHHHHHHHHhCCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            7999999998877663                   457889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|.+++.+.. .+++|+++|||
T Consensus        92 ~~~~~~i~~~~~~~~~piilv~n  114 (163)
T cd04136          92 QDLREQILRVKDTENVPMVLVGN  114 (163)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999998754 36899999997

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.

>cd04176 Rap2 Rap2 subgroup

Probab=99.91  E-value=1.6e-24  Score=122.87  Aligned_cols=83  Identities=29%  Similarity=0.505  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..+++.|+++++++++|||+++++||+++
T Consensus        12 vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~   91 (163)
T cd04176          12 VGKSALTVQFVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDI   91 (163)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            7999999888888764                   356789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+..+.+.. ..++|+++|||
T Consensus        92 ~~~~~~~~~~~~~~~~piviv~n  114 (163)
T cd04176          92 KPMRDQIVRVKGYEKVPIILVGN  114 (163)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999998754 36899999997

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

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

Probab=99.91  E-value=2.1e-24  Score=123.36  Aligned_cols=82  Identities=29%  Similarity=0.605  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+++|||+|++++..+++.+++++|++|+|||+++++||+.
T Consensus        11 vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   90 (166)
T cd00877          11 TGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKN   90 (166)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHH
Confidence            7999999999877654                    35788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++++.+.. .++|+++|||
T Consensus        91 ~~~~~~~i~~~~-~~~piiiv~n  112 (166)
T cd00877          91 VPNWHRDLVRVC-GNIPIVLCGN  112 (166)
T ss_pred             HHHHHHHHHHhC-CCCcEEEEEE
Confidence            999999998877 4899999998

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.91  E-value=1.8e-24  Score=122.86  Aligned_cols=83  Identities=29%  Similarity=0.560  Sum_probs=75.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..+++.++++++++++|||+++++||+++
T Consensus        12 ~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~   91 (164)
T cd04175          12 VGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDL   91 (164)
T ss_pred             CCHHHHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            7999999999877664                   467899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+|...+.+.. .+++|++||||
T Consensus        92 ~~~~~~i~~~~~~~~~piilv~n  114 (164)
T cd04175          92 QDLREQILRVKDTEDVPMILVGN  114 (164)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999987653 46899999998

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.91  E-value=2.7e-24  Score=122.71  Aligned_cols=83  Identities=63%  Similarity=1.024  Sum_probs=76.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+++++||++|++++..++..+++++|++++|||+++++||++
T Consensus        14 ~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~   93 (167)
T cd01867          14 VGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFEN   93 (167)
T ss_pred             CCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHh
Confidence            7999999999888765                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++|++++.+....++|+++|||
T Consensus        94 ~~~~~~~i~~~~~~~~p~iiv~n  116 (167)
T cd01867          94 IRNWMRNIEEHASEDVERMLVGN  116 (167)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887667899999997

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.91  E-value=3.1e-24  Score=122.10  Aligned_cols=83  Identities=47%  Similarity=0.879  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||+++.++..+.|.                    ..+++++||++|++++..++..++++++++++|||+++++||++
T Consensus        13 vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   92 (166)
T cd01869          13 VGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNN   92 (166)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHh
Confidence            7999999999887764                    34688999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|+++|||
T Consensus        93 l~~~~~~~~~~~~~~~~~iiv~n  115 (166)
T cd01869          93 VKQWLQEIDRYASENVNKLLVGN  115 (166)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887656899999997

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.91  E-value=3.7e-24  Score=123.10  Aligned_cols=83  Identities=42%  Similarity=0.775  Sum_probs=74.1

Q ss_pred             CCcceeeeeeccCccc------------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~   50 (83)
                      ||||||+.++..+.|.                              ..+.+++|||+|+++|..++..++++++++++||
T Consensus        15 vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~   94 (180)
T cd04127          15 VGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIF   94 (180)
T ss_pred             CCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEE
Confidence            7999999998776553                              2378899999999999999999999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      |+++++||++++.|++++.... .+++|+++|||
T Consensus        95 d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  128 (180)
T cd04127          95 DLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGN  128 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEe
Confidence            9999999999999999998754 36899999998

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.91  E-value=3.6e-24  Score=123.96  Aligned_cols=82  Identities=23%  Similarity=0.452  Sum_probs=73.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+.+++|||+|+++|..+++.+++++|++++|||+++++||++
T Consensus        11 vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~   90 (187)
T cd04132          11 CGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDN   90 (187)
T ss_pred             CCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHH
Confidence            7999999999888764                    35789999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +. .|+.++.... +++|+++|||
T Consensus        91 ~~~~~~~~~~~~~-~~~piilv~n  113 (187)
T cd04132          91 VEDKWFPEVNHFC-PGTPIMLVGL  113 (187)
T ss_pred             HHHHHHHHHHHhC-CCCCEEEEEe
Confidence            96 6998887655 6899999998

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.91  E-value=4.6e-24  Score=121.80  Aligned_cols=83  Identities=31%  Similarity=0.573  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..++++|||++|+++++.++..++++++++++|||+++++||+.
T Consensus        16 ~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   95 (170)
T cd04116          16 VGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQN   95 (170)
T ss_pred             CCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHh
Confidence            7999999999877765                    45678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      +..|..++....    ++++|+++|||
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~piilv~n  122 (170)
T cd04116          96 LSNWKKEFIYYADVKEPESFPFVVLGN  122 (170)
T ss_pred             HHHHHHHHHHhcccccCCCCcEEEEEE
Confidence            999999887643    25799999998

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.91  E-value=3.5e-24  Score=124.61  Aligned_cols=83  Identities=30%  Similarity=0.521  Sum_probs=75.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..+++.|+++++++++|||+++++||+.+
T Consensus        16 ~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~   95 (189)
T PTZ00369         16 VGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEI   95 (189)
T ss_pred             CCHHHHHHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            7999999999887763                   456799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. .+++|+++|||
T Consensus        96 ~~~~~~i~~~~~~~~~piiiv~n  118 (189)
T PTZ00369         96 ASFREQILRVKDKDRVPMILVGN  118 (189)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999997754 36899999997

>cd04109 Rab28 Rab28 subfamily

Probab=99.91  E-value=4.2e-24  Score=126.51  Aligned_cols=83  Identities=27%  Similarity=0.452  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..++++||||+|++.+..+++.|++++|++|+|||+++++||+
T Consensus        11 vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~   90 (215)
T cd04109          11 VGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFE   90 (215)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHH
Confidence            7999999999877664                     2578899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC---CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS---ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~---~~~piilvgN   83 (83)
                      ++..|++++.+...   .++|+++|||
T Consensus        91 ~~~~w~~~l~~~~~~~~~~~piilVgN  117 (215)
T cd04109          91 NLEDWYSMVRKVLKSSETQPLVVLVGN  117 (215)
T ss_pred             HHHHHHHHHHHhccccCCCceEEEEEE
Confidence            99999999987642   4689999998

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.91  E-value=5.1e-24  Score=121.18  Aligned_cols=83  Identities=41%  Similarity=0.757  Sum_probs=75.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+.+++|||+|++++..++..+++.+|++++|||+++++||+.
T Consensus        14 ~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~   93 (165)
T cd01864          14 VGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFES   93 (165)
T ss_pred             CCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHh
Confidence            7999999999776654                    34689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|+.++.....+++|+++|||
T Consensus        94 ~~~~~~~i~~~~~~~~p~ivv~n  116 (165)
T cd01864          94 VPHWIEEVEKYGASNVVLLLIGN  116 (165)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887667899999997

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.

>cd04112 Rab26 Rab26 subfamily

Probab=99.91  E-value=5.5e-24  Score=123.94  Aligned_cols=83  Identities=47%  Similarity=0.795  Sum_probs=75.5

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+.++||||+|++++..++..++++++++|+|||+++++||+
T Consensus        11 vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~   90 (191)
T cd04112          11 VGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFD   90 (191)
T ss_pred             CCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHH
Confidence            7999999988776663                     3468999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..|++.+.+..+.++|+++|||
T Consensus        91 ~~~~~~~~i~~~~~~~~piiiv~N  114 (191)
T cd04112          91 NIRAWLTEIKEYAQEDVVIMLLGN  114 (191)
T ss_pred             HHHHHHHHHHHhCCCCCcEEEEEE
Confidence            999999999987767899999998

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.91  E-value=5.9e-24  Score=120.94  Aligned_cols=78  Identities=18%  Similarity=0.395  Sum_probs=68.3

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +||||++.++..+.|.                  +.+.+++|||+|+++     ..|++++|++++|||+++++||+++.
T Consensus        11 vGKTsli~~~~~~~f~~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf~~~~   85 (158)
T cd04103          11 SGKSALVHRYLTGSYVQLESPEGGRFKKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASFQTVY   85 (158)
T ss_pred             CcHHHHHHHHHhCCCCCCCCCCccceEEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHHHHHH
Confidence            7999999998776553                  457899999999975     45788999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCceEEEEeC
Q psy16649         63 NWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~~-~~~piilvgN   83 (83)
                      .|++++..... +++|++||||
T Consensus        86 ~~~~~i~~~~~~~~~piilvgn  107 (158)
T cd04103          86 NLYHQLSSYRNISEIPLILVGT  107 (158)
T ss_pred             HHHHHHHHhcCCCCCCEEEEee
Confidence            99999987653 6799999998

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.91  E-value=8.2e-24  Score=122.76  Aligned_cols=83  Identities=40%  Similarity=0.717  Sum_probs=76.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++||++|+++|..++..++++++++++|||+++++||++
T Consensus        11 vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~   90 (188)
T cd04125          11 VGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFEN   90 (188)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHH
Confidence            7999999999988775                    35678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++....+..+|+++|||
T Consensus        91 i~~~~~~i~~~~~~~~~~ivv~n  113 (188)
T cd04125          91 LKFWINEINRYARENVIKVIVAN  113 (188)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887667799999997

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.

>cd01868 Rab11_like Rab11-like

Probab=99.90  E-value=9.6e-24  Score=119.89  Aligned_cols=83  Identities=42%  Similarity=0.812  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+++++||++|++++..+++.++++++++++|||+++++||++
T Consensus        14 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   93 (165)
T cd01868          14 VGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFEN   93 (165)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHH
Confidence            7999999999877654                    44789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|++++.+..+.++|+++|||
T Consensus        94 ~~~~~~~~~~~~~~~~pi~vv~n  116 (165)
T cd01868          94 VERWLKELRDHADSNIVIMLVGN  116 (165)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887766799999997

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.90  E-value=1.1e-23  Score=120.33  Aligned_cols=83  Identities=41%  Similarity=0.775  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||+|+.++..+.+.                    ..+.+.+||++|++++..++..++++++++++|||+++++||+.
T Consensus        15 vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~   94 (168)
T cd01866          15 VGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNH   94 (168)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHH
Confidence            7999999999877643                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++++...+++|+++|||
T Consensus        95 ~~~~~~~~~~~~~~~~pvivv~n  117 (168)
T cd01866          95 LTSWLEDARQHSNSNMTIMLIGN  117 (168)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887667899999997

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.90  E-value=1.1e-23  Score=119.32  Aligned_cols=83  Identities=22%  Similarity=0.613  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.|.                    ..+.+++|||+|++++..+++.++++++++|+|||+++++||+.
T Consensus        11 vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~   90 (168)
T cd04119          11 VGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEA   90 (168)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHh
Confidence            7999999998877653                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC-----CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS-----ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~-----~~~piilvgN   83 (83)
                      +..|++++.+...     .++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~piilv~n  118 (168)
T cd04119          91 LDSWLKEMKQEGGPHGNMENIVVVVCAN  118 (168)
T ss_pred             HHHHHHHHHHhccccccCCCceEEEEEE
Confidence            9999999988653     4799999997

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.90  E-value=1.1e-23  Score=124.98  Aligned_cols=83  Identities=43%  Similarity=0.795  Sum_probs=76.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||+|+.++..+.|.                    ..+.+++|||+|++++..++..++++++++++|||+++++||++
T Consensus        23 vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~  102 (216)
T PLN03110         23 VGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDN  102 (216)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHH
Confidence            7999999998877664                    45799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+..+....+.++|+++|||
T Consensus       103 ~~~~~~~~~~~~~~~~piiiv~n  125 (216)
T PLN03110        103 VQRWLRELRDHADSNIVIMMAGN  125 (216)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887767899999997

>cd04140 ARHI_like ARHI subfamily

Probab=99.90  E-value=7.5e-24  Score=120.67  Aligned_cols=83  Identities=24%  Similarity=0.425  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..++..++++++++++|||+++++||+++
T Consensus        12 vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   91 (165)
T cd04140          12 VGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEEL   91 (165)
T ss_pred             CCHHHHHHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            7999999999888764                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc---CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~---~~~~piilvgN   83 (83)
                      +.|++.+++..   .+++|+++|||
T Consensus        92 ~~~~~~i~~~~~~~~~~~piilv~n  116 (165)
T cd04140          92 KPIYELICEIKGNNIEKIPIMLVGN  116 (165)
T ss_pred             HHHHHHHHHHhcCCCCCCCEEEEEE
Confidence            99998887753   26799999998

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.90  E-value=8.4e-24  Score=127.68  Aligned_cols=83  Identities=19%  Similarity=0.382  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   +.+.++||||+|+++|..++..++.++|++|+|||+++++||+++
T Consensus        11 vGKTSLi~r~~~~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i   90 (247)
T cd04143          11 VGKTAIVSRFLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEV   90 (247)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHH
Confidence            7999999999887775                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh---------cCCCceEEEEeC
Q psy16649         62 KNWIRNIEEN---------ASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~---------~~~~~piilvgN   83 (83)
                      ..|++++.+.         ...++|++||||
T Consensus        91 ~~~~~~I~~~k~~~~~~~~~~~~~piIivgN  121 (247)
T cd04143          91 CRLREQILETKSCLKNKTKENVKIPMVICGN  121 (247)
T ss_pred             HHHHHHHHHhhcccccccccCCCCcEEEEEE
Confidence            9999998764         225799999998

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.90  E-value=9.3e-24  Score=119.48  Aligned_cols=82  Identities=33%  Similarity=0.653  Sum_probs=74.4

Q ss_pred             CCcceeeeeeccCccc----------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      +||||++.++..+.|.                      ..+++++|||+|+++|..++..++++++++++|||+++++||
T Consensus        11 ~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~   90 (162)
T cd04106          11 VGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESF   90 (162)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHH
Confidence            7999999999887663                      246799999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+..|+.++.+.. +++|+++|||
T Consensus        91 ~~l~~~~~~~~~~~-~~~p~iiv~n  114 (162)
T cd04106          91 EAIESWKEKVEAEC-GDIPMVLVQT  114 (162)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEE
Confidence            99999999997665 6899999997

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.90  E-value=1.3e-23  Score=118.90  Aligned_cols=83  Identities=41%  Similarity=0.753  Sum_probs=76.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+++++||++|+++|..+++.++++++++++|||++++++|++
T Consensus        11 vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   90 (161)
T cd04113          11 TGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEA   90 (161)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            7999999999877754                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+++++....+++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~~~iivv~n  113 (161)
T cd04113          91 LPTWLSDARALASPNIVVILVGN  113 (161)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999877668899999997

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.90  E-value=1e-23  Score=123.58  Aligned_cols=82  Identities=46%  Similarity=0.834  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++||++|+++++.++..++++++++++|||+++++||+.
T Consensus        17 vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~   96 (199)
T cd04110          17 VGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVN   96 (199)
T ss_pred             CCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHH
Confidence            7999999999877654                    34689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.... +.+|+++|||
T Consensus        97 ~~~~~~~i~~~~-~~~piivVgN  118 (199)
T cd04110          97 VKRWLQEIEQNC-DDVCKVLVGN  118 (199)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999987765 6899999997

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.90  E-value=9.9e-24  Score=121.02  Aligned_cols=82  Identities=23%  Similarity=0.470  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+++++|||+|+++|..+++.+++++|++|+|||+++++||+++
T Consensus        11 ~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~   90 (173)
T cd04130          11 VGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNI   90 (173)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHH
Confidence            7999999998777665                   357899999999999999999999999999999999999999998


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.++... +++|+++|||
T Consensus        91 ~~~~~~~~~~~~-~~~piilv~n  112 (173)
T cd04130          91 SEKWIPEIRKHN-PKAPIILVGT  112 (173)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEee
Confidence            5 7999888654 5799999998

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,

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.90  E-value=1e-23  Score=120.43  Aligned_cols=82  Identities=12%  Similarity=0.260  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      +||||++.++..+.+.                ..+++++||++|+++++.+++.++++++++++|||.+++++|.+++.|
T Consensus        10 vGKTsli~~~~~~~~~~~~~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~   89 (164)
T cd04162          10 AGKTSLLHSLSSERSLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQE   89 (164)
T ss_pred             CCHHHHHHHHhcCCCcccccccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHH
Confidence            7999999999988665                457899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCceEEEEeC
Q psy16649         65 IRNIEENASANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~~~~~piilvgN   83 (83)
                      +.++.... +++|+++|||
T Consensus        90 l~~~~~~~-~~~piilv~N  107 (164)
T cd04162          90 LHQLLQHP-PDLPLVVLAN  107 (164)
T ss_pred             HHHHHhCC-CCCcEEEEEe
Confidence            98886554 6899999998

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.90  E-value=2.5e-23  Score=120.99  Aligned_cols=82  Identities=27%  Similarity=0.545  Sum_probs=73.9

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+++++||++|++++..++..++++++++++|||+++++||+
T Consensus        11 vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~   90 (193)
T cd04118          11 VGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFE   90 (193)
T ss_pred             CCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHH
Confidence            6999999998887663                     3467889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..|+++++... +++|+++|||
T Consensus        91 ~~~~~~~~i~~~~-~~~piilv~n  113 (193)
T cd04118          91 RAKFWVKELQNLE-EHCKIYLCGT  113 (193)
T ss_pred             HHHHHHHHHHhcC-CCCCEEEEEE
Confidence            9999999998764 5799999997

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.89  E-value=2.1e-23  Score=118.54  Aligned_cols=83  Identities=14%  Similarity=0.348  Sum_probs=72.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++..+.|.               +.+.+++||++|++++..+++.|+++++++++|||++++++|+++..|+
T Consensus        11 ~GKTsli~~l~~~~~~~~~pt~g~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~   90 (159)
T cd04150          11 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREEL   90 (159)
T ss_pred             CCHHHHHHHHhcCCCcccCCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            7999999999776664               3478999999999999999999999999999999999999999999887


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .++... ...++|++|+||
T Consensus        91 ~~~~~~~~~~~~piilv~N  109 (159)
T cd04150          91 QRMLNEDELRDAVLLVFAN  109 (159)
T ss_pred             HHHHhcHHhcCCCEEEEEE
Confidence            776442 225689999997

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=99.89  E-value=3.3e-23  Score=116.81  Aligned_cols=83  Identities=30%  Similarity=0.554  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|+.+++.|+++++++++|||++++++|+++
T Consensus        12 vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~   91 (162)
T cd04138          12 VGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDI   91 (162)
T ss_pred             CCHHHHHHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            7999999999887764                   346689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+..+.+.. ..++|+++|||
T Consensus        92 ~~~~~~i~~~~~~~~~piivv~n  114 (162)
T cd04138          92 HTYREQIKRVKDSDDVPMVLVGN  114 (162)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999998764 35899999997

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.89  E-value=4e-23  Score=118.23  Aligned_cols=83  Identities=36%  Similarity=0.724  Sum_probs=74.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhh-cchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~-~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +||||++.++..+.+.                    ..+.+++||++|+++++ .+++.+++++|++++|||+++++||+
T Consensus        13 vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   92 (170)
T cd04115          13 VGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFH   92 (170)
T ss_pred             CCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHH
Confidence            7999999999877764                    45789999999999997 58899999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+..|++++.... ..++|+++|||
T Consensus        93 ~~~~~~~~~~~~~~~~~~p~iiv~n  117 (170)
T cd04115          93 SLPSWIEECEQHSLPNEVPRILVGN  117 (170)
T ss_pred             hHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            9999999998754 36899999997

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.89  E-value=3.5e-23  Score=122.42  Aligned_cols=83  Identities=35%  Similarity=0.697  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+++++|||+|++++..++..++++++++++|||+++++||+
T Consensus        13 vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~   92 (211)
T cd04111          13 VGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFE   92 (211)
T ss_pred             CCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHH
Confidence            6999999999877764                     2478999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ++.+|++++.+... ..+|++||||
T Consensus        93 ~l~~~~~~i~~~~~~~~~~iilvgN  117 (211)
T cd04111          93 HVHDWLEEARSHIQPHRPVFILVGH  117 (211)
T ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEE
Confidence            99999999987653 5688999997

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.89  E-value=5e-23  Score=116.37  Aligned_cols=83  Identities=35%  Similarity=0.652  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.+.                    ..+++++||++|++++..++..++++++++++|||+++++||+.
T Consensus        11 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   90 (161)
T cd01861          11 VGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDN   90 (161)
T ss_pred             CCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHH
Confidence            7999999998877664                    34679999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++....+.++|++++||
T Consensus        91 ~~~~~~~~~~~~~~~~~iilv~n  113 (161)
T cd01861          91 TDKWIDDVRDERGNDVIIVLVGN  113 (161)
T ss_pred             HHHHHHHHHHhCCCCCEEEEEEE
Confidence            99999999876656799999997

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.89  E-value=2e-23  Score=119.66  Aligned_cols=83  Identities=20%  Similarity=0.397  Sum_probs=72.7

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+++++|||+|+++++.+++.++++++++++|||++++.+|+++..|+
T Consensus        20 ~GKTsli~~l~~~~~~~~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~   99 (168)
T cd04149          20 AGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQEL   99 (168)
T ss_pred             CCHHHHHHHHccCCCccccCCcccceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHH
Confidence            7999999999876664               3488999999999999999999999999999999999999999999888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... .+++|++||||
T Consensus       100 ~~~~~~~~~~~~piilv~N  118 (168)
T cd04149         100 HRIINDREMRDALLLVFAN  118 (168)
T ss_pred             HHHhcCHhhcCCcEEEEEE
Confidence            7775432 25799999998

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

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

Probab=99.89  E-value=3e-23  Score=119.51  Aligned_cols=83  Identities=17%  Similarity=0.348  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.|.               ..+++++|||+|+++++.+++.|+++++++|+|||++++++|+++..|+
T Consensus        24 ~GKTsL~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l  103 (175)
T smart00177       24 AGKTTILYKLKLGESVTTIPTIGFNVETVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREEL  103 (175)
T ss_pred             CCHHHHHHHHhcCCCCCcCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999999877764               4578999999999999999999999999999999999999999999888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... .+++|++||||
T Consensus       104 ~~~~~~~~~~~~piilv~N  122 (175)
T smart00177      104 HRMLNEDELRDAVILVFAN  122 (175)
T ss_pred             HHHhhCHhhcCCcEEEEEe
Confidence            8875432 35799999998

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).

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.89  E-value=2.5e-23  Score=120.57  Aligned_cols=83  Identities=14%  Similarity=0.331  Sum_probs=72.5

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++..+.|.               ..+.+++||++|+++++.++..|++++|++|+|||++++++|+++..|+
T Consensus        28 ~GKTsl~~~l~~~~~~~~~pt~g~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l  107 (181)
T PLN00223         28 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDEL  107 (181)
T ss_pred             CCHHHHHHHHccCCCccccCCcceeEEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHH
Confidence            7999999999877664               3478999999999999999999999999999999999999999998887


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      ..+... ..+++|++||||
T Consensus       108 ~~~l~~~~~~~~piilv~N  126 (181)
T PLN00223        108 HRMLNEDELRDAVLLVFAN  126 (181)
T ss_pred             HHHhcCHhhCCCCEEEEEE
Confidence            776432 225799999998

>KOG0395|consensus

Probab=99.89  E-value=1.1e-22  Score=119.27  Aligned_cols=83  Identities=34%  Similarity=0.535  Sum_probs=77.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||+++.||..+.|.                   +.+.|.|+||+|++.|..++..|+++++++++||+++++.||+.+
T Consensus        14 VGKSal~~qf~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~   93 (196)
T KOG0395|consen   14 VGKSALTIQFLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEA   93 (196)
T ss_pred             CCcchheeeecccccccccCCCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHH
Confidence            6999999999999998                   778889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.+++++.+.. ...+|++||||
T Consensus        94 ~~l~~~I~r~~~~~~~PivlVGN  116 (196)
T KOG0395|consen   94 KQLREQILRVKGRDDVPIILVGN  116 (196)
T ss_pred             HHHHHHHHHhhCcCCCCEEEEEE
Confidence            99999995543 46799999998

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.88  E-value=1e-22  Score=115.48  Aligned_cols=83  Identities=35%  Similarity=0.584  Sum_probs=74.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|+++|..+++.++++++++++|||++++++|+++
T Consensus        11 ~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   90 (164)
T smart00173       11 VGKSALTIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEI   90 (164)
T ss_pred             CCHHHHHHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            7999999998876653                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|.+.+.+.. ..+.|+++|||
T Consensus        91 ~~~~~~i~~~~~~~~~pii~v~n  113 (164)
T smart00173       91 KKFREQILRVKDRDDVPIVLVGN  113 (164)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999887653 35799999997

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.88  E-value=1.1e-22  Score=119.22  Aligned_cols=64  Identities=22%  Similarity=0.358  Sum_probs=57.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.++|++|||+|+++  .+++.||++++++|+|||+++++||++++ .|++++++.. +++|++||||
T Consensus        64 ~~v~l~iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgN  128 (195)
T cd01873          64 VSVSLRLWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGC  128 (195)
T ss_pred             EEEEEEEEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEE
Confidence            368999999999986  36778999999999999999999999997 6999998776 5899999998

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.

>PLN03108 Rab family protein; Provisional

Probab=99.88  E-value=1.4e-22  Score=119.68  Aligned_cols=83  Identities=43%  Similarity=0.777  Sum_probs=75.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++|||+|+++|..++..++++++++++|||+++++||+.
T Consensus        17 vGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~   96 (210)
T PLN03108         17 VGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNH   96 (210)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHH
Confidence            7999999998876553                    35689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....+.+|+++|||
T Consensus        97 l~~~~~~~~~~~~~~~piiiv~n  119 (210)
T PLN03108         97 LASWLEDARQHANANMTIMLIGN  119 (210)
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999998777667899999997

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.88  E-value=1.4e-22  Score=114.90  Aligned_cols=82  Identities=24%  Similarity=0.544  Sum_probs=73.0

Q ss_pred             CCcceeeeeeccC--ccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH
Q psy16649          1 SGENLCTLQIFRG--CFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~--~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      |||||++.++..+  .|+                     ..+++.+|||+|++++..+++.+++++|++++|||+++++|
T Consensus        11 ~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s   90 (164)
T cd04101          11 VGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKAS   90 (164)
T ss_pred             CCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHH
Confidence            7999999988654  232                     45889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         58 FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        58 ~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |++++.|++++.+.. +++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~-~~~p~ilv~n  115 (164)
T cd04101          91 FENCSRWVNKVRTAS-KHMPGVLVGN  115 (164)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999999998775 6799999997

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.

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

Probab=99.88  E-value=2.2e-22  Score=113.93  Aligned_cols=83  Identities=28%  Similarity=0.503  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+++++|||+|++++..++..++++++++++|||++++++|+++
T Consensus        13 ~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   92 (164)
T cd04145          13 VGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEV   92 (164)
T ss_pred             CcHHHHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            6999999987765543                   346789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. ..++|++++||
T Consensus        93 ~~~~~~~~~~~~~~~~piiiv~N  115 (164)
T cd04145          93 DKFHTQILRVKDRDEFPMILVGN  115 (164)
T ss_pred             HHHHHHHHHHhCCCCCCEEEEee
Confidence            99999987753 36899999998

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.88  E-value=3.8e-22  Score=112.86  Aligned_cols=83  Identities=49%  Similarity=0.858  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+++||++|++++..++..+++++|++++|||++++++|+.
T Consensus        11 ~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~   90 (164)
T smart00175       11 VGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFEN   90 (164)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHH
Confidence            7999999999876654                    44789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.....+++|+++|+|
T Consensus        91 ~~~~l~~~~~~~~~~~pivvv~n  113 (164)
T smart00175       91 LKNWLKELREYADPNVVIMLVGN  113 (164)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887767899999997

Rab GTPases are implicated in vesicle trafficking.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.88  E-value=2.9e-22  Score=114.69  Aligned_cols=82  Identities=24%  Similarity=0.470  Sum_probs=73.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      ||||||+.++..+.|.                   ..+.+.+|||+|+++|..+++.++++++++++|||+++++||+++
T Consensus        12 ~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~   91 (175)
T cd01870          12 CGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENI   91 (175)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHH
Confidence            7999999999988764                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|.+++++.. ++.|+++|||
T Consensus        92 ~~~~~~~~~~~~-~~~piilv~n  113 (175)
T cd01870          92 PEKWTPEVKHFC-PNVPIILVGN  113 (175)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEee
Confidence            6 6998887664 5899999998

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.87  E-value=5.2e-22  Score=112.38  Aligned_cols=83  Identities=40%  Similarity=0.757  Sum_probs=75.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||+++.++..+.+.                    ..+++.+||++|++++...++.++++++++++|||.+++++|+.
T Consensus        12 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   91 (163)
T cd01860          12 VGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEK   91 (163)
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHH
Confidence            7999999988887654                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++.+.....+.+|+++++|
T Consensus        92 ~~~~~~~~~~~~~~~~~iivv~n  114 (163)
T cd01860          92 AKSWVKELQRNASPNIIIALVGN  114 (163)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887667899999987

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.87  E-value=4e-22  Score=113.85  Aligned_cols=83  Identities=29%  Similarity=0.512  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..+++.+++.++++++|||++++++|+.+
T Consensus        12 ~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~   91 (168)
T cd04177          12 VGKSALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNEL   91 (168)
T ss_pred             CCHHHHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            7999999998877774                   347889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|.+.+.+.. ..+.|++++||
T Consensus        92 ~~~~~~i~~~~~~~~~piiiv~n  114 (168)
T cd04177          92 GELREQVLRIKDSDNVPMVLVGN  114 (168)
T ss_pred             HHHHHHHHHhhCCCCCCEEEEEE
Confidence            99999997743 36899999997

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

>cd04135 Tc10 TC10 subfamily

Probab=99.87  E-value=3.7e-22  Score=114.20  Aligned_cols=82  Identities=24%  Similarity=0.510  Sum_probs=73.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..+++.++++++++++|||+++++||+++
T Consensus        11 ~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~   90 (174)
T cd04135          11 VGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNV   90 (174)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHH
Confidence            7999999998877764                   457789999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.++.. .++.|+++|||
T Consensus        91 ~~~~~~~l~~~-~~~~piivv~n  112 (174)
T cd04135          91 KEEWVPELKEY-APNVPYLLVGT  112 (174)
T ss_pred             HHHHHHHHHhh-CCCCCEEEEeE
Confidence            6 799888766 47899999997

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.87  E-value=4.4e-22  Score=113.23  Aligned_cols=83  Identities=29%  Similarity=0.412  Sum_probs=71.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh-hcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF-RTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~-~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                   ..+++++||++|++++ ......+++++|++++|||+++++||+.
T Consensus        10 ~GKtsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   89 (165)
T cd04146          10 VGKSALVVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDE   89 (165)
T ss_pred             CcHHHHHHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHH
Confidence            7999999998765543                   4578999999999863 4567889999999999999999999999


Q ss_pred             HHHHHHHHHHhc--CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA--SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~--~~~~piilvgN   83 (83)
                      ++.|++.+.+..  ..++|+++|||
T Consensus        90 ~~~~~~~~~~~~~~~~~~piilv~n  114 (165)
T cd04146          90 ISQLKQLIREIKKRDREIPVILVGN  114 (165)
T ss_pred             HHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            999999988754  35899999997

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

>PTZ00099 rab6; Provisional

Probab=99.87  E-value=2.2e-21  Score=112.19  Aligned_cols=67  Identities=40%  Similarity=0.722  Sum_probs=63.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..++++||||+|+++++.+++.|+++||++|+|||+++++||+++..|++++.+..++++|++||||
T Consensus        27 ~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgN   93 (176)
T PTZ00099         27 GPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGN   93 (176)
T ss_pred             EEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEE
Confidence            6799999999999999999999999999999999999999999999999999876657899999998

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.87  E-value=3.4e-22  Score=115.89  Aligned_cols=83  Identities=16%  Similarity=0.363  Sum_probs=72.0

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.|.               ..+.+++|||+|+++++.+++.|++++|++|+|||++++++|+++..|+
T Consensus        28 vGKTsli~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l  107 (182)
T PTZ00133         28 AGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREEL  107 (182)
T ss_pred             CCHHHHHHHHhcCCccccCCccccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            7999999999877664               3478999999999999999999999999999999999999999998877


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .++... ...++|++||||
T Consensus       108 ~~~~~~~~~~~~piilv~N  126 (182)
T PTZ00133        108 ERMLSEDELRDAVLLVFAN  126 (182)
T ss_pred             HHHHhCHhhcCCCEEEEEe
Confidence            776432 225789999998

>cd04158 ARD1 ARD1 subfamily

Probab=99.87  E-value=3.5e-22  Score=114.36  Aligned_cols=83  Identities=13%  Similarity=0.316  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++..+.+.               ..+.+++|||+|+++++.++..++++++++++|||++++++|+++..|+
T Consensus        10 ~GKTsl~~~l~~~~~~~~~~T~~~~~~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~   89 (169)
T cd04158          10 AGKTTILFKLKQDEFMQPIPTIGFNVETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSEL   89 (169)
T ss_pred             CCHHHHHHHHhcCCCCCcCCcCceeEEEEEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHH
Confidence            7999999999887664               3478899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|++||||
T Consensus        90 ~~~~~~~~~~~~piilv~N  108 (169)
T cd04158          90 AKLLTEKELRDALLLIFAN  108 (169)
T ss_pred             HHHhcChhhCCCCEEEEEe
Confidence            8887543 25689999998

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.87  E-value=4.2e-22  Score=113.96  Aligned_cols=82  Identities=20%  Similarity=0.396  Sum_probs=72.7

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      ||||||+.++..+ +.                ..+++++||++|+++++.++..|+++++++++|||.+++++|++++.|
T Consensus        10 ~GKTsl~~~l~~~-~~~~~~~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~   88 (167)
T cd04161          10 AGKTTLVSALQGE-IPKKVAPTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEI   88 (167)
T ss_pred             CCHHHHHHHHhCC-CCccccCcccceEEEEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHH
Confidence            7999999998755 43                357899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcC-CCceEEEEeC
Q psy16649         65 IRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~~-~~~piilvgN   83 (83)
                      +..+.+... .++|++||||
T Consensus        89 l~~l~~~~~~~~~piliv~N  108 (167)
T cd04161          89 LRELLQHPRVSGKPILVLAN  108 (167)
T ss_pred             HHHHHcCccccCCcEEEEEe
Confidence            998876432 5799999998

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.87  E-value=1.1e-21  Score=110.64  Aligned_cols=83  Identities=35%  Similarity=0.695  Sum_probs=75.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+||++|++.+..+++.++++++++++|||++++++++.
T Consensus        11 ~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   90 (162)
T cd04123          11 VGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQK   90 (162)
T ss_pred             CCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHH
Confidence            7999999988877654                    45679999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++....+.++|+++|||
T Consensus        91 ~~~~~~~i~~~~~~~~piiiv~n  113 (162)
T cd04123          91 VKKWIKELKQMRGNNISLVIVGN  113 (162)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887666899999987

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.87  E-value=9e-22  Score=112.26  Aligned_cols=82  Identities=23%  Similarity=0.362  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.++..+.|.                  ..+++++|||+|++++...+..+++.++++++|||+++++||+.+.
T Consensus        11 vGKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~   90 (166)
T cd01893          11 VGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIR   90 (166)
T ss_pred             CCHHHHHHHHHhCcCCccCCCcccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHH
Confidence            7999999999888874                  4578899999999999888888899999999999999999999986


Q ss_pred             -HHHHHHHHhcCCCceEEEEeC
Q psy16649         63 -NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        63 -~w~~~~~~~~~~~~piilvgN   83 (83)
                       .|++.++... +++|+++|||
T Consensus        91 ~~~~~~i~~~~-~~~pviiv~n  111 (166)
T cd01893          91 TKWLPLIRRLG-VKVPIILVGN  111 (166)
T ss_pred             HHHHHHHHHhC-CCCCEEEEEE
Confidence             7988888765 5899999998

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.

>cd04142 RRP22 RRP22 subfamily

Probab=99.86  E-value=2.1e-21  Score=113.95  Aligned_cols=83  Identities=22%  Similarity=0.325  Sum_probs=69.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhc--------chhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRT--------ITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~--------~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++..+.|.                    ..+.+++|||+|.+++..        ....+++.+|++++|||+
T Consensus        11 vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~   90 (198)
T cd04142          11 VGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDI   90 (198)
T ss_pred             CcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEEC
Confidence            6999999999988775                    347889999999765422        234568899999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhc---CCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~---~~~~piilvgN   83 (83)
                      ++++||+.++.|++++.+..   .+++|+++|||
T Consensus        91 ~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgN  124 (198)
T cd04142          91 CSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGN  124 (198)
T ss_pred             CCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEE
Confidence            99999999999999987754   46899999998

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.86  E-value=3.1e-21  Score=112.96  Aligned_cols=83  Identities=19%  Similarity=0.348  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+++++||++|+++|..++..+++++|++++|||++++++|+.+
T Consensus        10 vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~   89 (198)
T cd04147          10 VGKTALIQRFLYDTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEV   89 (198)
T ss_pred             CCHHHHHHHHHhCCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            6999999998877654                   347899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|+..+.+... .++|+++|+|
T Consensus        90 ~~~~~~i~~~~~~~~~piilv~N  112 (198)
T cd04147          90 ERLREEILEVKEDKFVPIVVVGN  112 (198)
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            999999887653 5799999997

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.86  E-value=4e-21  Score=108.65  Aligned_cols=83  Identities=41%  Similarity=0.810  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+++||++|++++..++..+++++|++++|||+++++||+.
T Consensus        11 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   90 (161)
T cd01863          11 VGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTN   90 (161)
T ss_pred             CCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHh
Confidence            7999999988876553                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +..|++.+.+.. ..++|+++|||
T Consensus        91 ~~~~~~~i~~~~~~~~~~~~iv~n  114 (161)
T cd01863          91 LETWLNELETYSTNNDIVKMLVGN  114 (161)
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEEE
Confidence            999999998865 46899999997

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.85  E-value=2.9e-21  Score=114.21  Aligned_cols=82  Identities=29%  Similarity=0.564  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+++|||+|++++..++..++++++++++|||+++++||..
T Consensus        20 ~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   99 (215)
T PTZ00132         20 VGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKN   99 (215)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHH
Confidence            7999999988776654                    56899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.+.. +++|++++||
T Consensus       100 ~~~~~~~i~~~~-~~~~i~lv~n  121 (215)
T PTZ00132        100 VPNWHRDIVRVC-ENIPIVLVGN  121 (215)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998765 6799999997

>PLN03118 Rab family protein; Provisional

Probab=99.85  E-value=3.6e-21  Score=113.63  Aligned_cols=83  Identities=39%  Similarity=0.740  Sum_probs=71.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|+++|..++..++++++++++|||+++++||+++
T Consensus        25 vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~  104 (211)
T PLN03118         25 VGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNL  104 (211)
T ss_pred             CCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            6999999888765543                   457889999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KN-WIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~-w~~~~~~~~-~~~~piilvgN   83 (83)
                      .. |...+.... ..+.|+++|||
T Consensus       105 ~~~~~~~~~~~~~~~~~~~ilv~N  128 (211)
T PLN03118        105 SDVWGKEVELYSTNQDCVKMLVGN  128 (211)
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEEE
Confidence            75 777776544 35689999997

>cd04114 Rab30 Rab30 subfamily

Probab=99.85  E-value=5.9e-21  Score=108.70  Aligned_cols=83  Identities=42%  Similarity=0.741  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+.+||++|+++|...+..+++.++++++|||++++++|+.
T Consensus        18 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   97 (169)
T cd04114          18 VGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRC   97 (169)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            7999999998644432                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+++++.....++|+++|||
T Consensus        98 ~~~~~~~l~~~~~~~~~~i~v~N  120 (169)
T cd04114          98 LPEWLREIEQYANNKVITILVGN  120 (169)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887666899999997

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.85  E-value=2.2e-21  Score=111.22  Aligned_cols=81  Identities=16%  Similarity=0.163  Sum_probs=72.0

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +||||++.+|..+.|.                     ..+.+++||++|++++..+++.|++++|++++|||+++++||+
T Consensus        15 vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~   94 (169)
T cd01892          15 SGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFS   94 (169)
T ss_pred             CcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHH
Confidence            7999999999988763                     3467899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+..|++++...  .++|+++|||
T Consensus        95 ~~~~~~~~~~~~--~~~p~iiv~N  116 (169)
T cd01892          95 YCAEVYKKYFML--GEIPCLFVAA  116 (169)
T ss_pred             HHHHHHHHhccC--CCCeEEEEEE
Confidence            999999876432  4799999998

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.

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

Probab=99.85  E-value=3.7e-21  Score=113.57  Aligned_cols=83  Identities=36%  Similarity=0.637  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC-hhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN-EKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~-~~s~~   59 (83)
                      +||||++.++..+.|.                    ..+++++|||+||++|+.+++.|++++++++++||.++ ..+++
T Consensus        16 ~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~   95 (219)
T COG1100          16 VGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDE   95 (219)
T ss_pred             ccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhH
Confidence            7999999999998887                    25679999999999999999999999999999999999 55566


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.|.+++....+...|+++|||
T Consensus        96 ~~~~~~~~l~~~~~~~~~iilv~n  119 (219)
T COG1100          96 LTEEWLEELRELAPDDVPILLVGN  119 (219)
T ss_pred             HHHHHHHHHHHhCCCCceEEEEec
Confidence            667999999988766899999997

>cd04157 Arl6 Arl6 subfamily

Probab=99.85  E-value=3.6e-21  Score=108.75  Aligned_cols=83  Identities=20%  Similarity=0.320  Sum_probs=72.4

Q ss_pred             CCcceeeeeeccCcc-c----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCF-Q----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN   63 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~   63 (83)
                      +||||++.++..+.+ .                ..+++++|||+|++++..++..++++++++++|+|.+++.+|..+..
T Consensus        10 ~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~   89 (162)
T cd04157          10 SGKTTIINQLKPENAQSQIIVPTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKD   89 (162)
T ss_pred             CCHHHHHHHHcccCCCcceecCccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHH
Confidence            799999999988653 2                34678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhc---CCCceEEEEeC
Q psy16649         64 WIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        64 w~~~~~~~~---~~~~piilvgN   83 (83)
                      |++++.+..   ..++|+++|||
T Consensus        90 ~~~~~~~~~~~~~~~~p~iiv~N  112 (162)
T cd04157          90 ELELLLNHPDIKHRRVPILFFAN  112 (162)
T ss_pred             HHHHHHcCcccccCCCCEEEEEe
Confidence            988886532   35799999998

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.85  E-value=8.6e-21  Score=108.10  Aligned_cols=83  Identities=39%  Similarity=0.594  Sum_probs=72.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.+.                    ..+.+++||++|++.+..++..++++++++|++||++++++|++
T Consensus        11 ~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~   90 (172)
T cd01862          11 VGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFES   90 (172)
T ss_pred             CCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            7999999998776543                    45778899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC----CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS----ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~----~~~piilvgN   83 (83)
                      +..|.+++.....    .++|+++|||
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~p~ilv~n  117 (172)
T cd01862          91 LDSWRDEFLIQASPSDPENFPFVVLGN  117 (172)
T ss_pred             HHHHHHHHHHhcCccCCCCceEEEEEE
Confidence            9999988766542    3799999997

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-

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.85  E-value=5.3e-21  Score=110.83  Aligned_cols=83  Identities=22%  Similarity=0.384  Sum_probs=72.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..+.|.                    ..+.+++|||+|+++++.+++.++++++++++|||.+++++++.
T Consensus        14 ~GKTsli~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~   93 (183)
T cd04152          14 AGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEE   93 (183)
T ss_pred             CCHHHHHHHHhcCCcCCcCCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHH
Confidence            7999999998776543                    23679999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +..|+.++.+.. ..+.|+++|+|
T Consensus        94 ~~~~~~~i~~~~~~~~~p~iiv~N  117 (183)
T cd04152          94 AKTELHKITRFSENQGVPVLVLAN  117 (183)
T ss_pred             HHHHHHHHHhhhhcCCCcEEEEEE
Confidence            999998887643 25799999987

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.84  E-value=8.6e-21  Score=110.21  Aligned_cols=82  Identities=24%  Similarity=0.459  Sum_probs=72.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+.+||++|++++...++.+++++++++++||+++++||+++
T Consensus        12 ~GKStLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~   91 (187)
T cd04129          12 CGKTSLLSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENV   91 (187)
T ss_pred             CCHHHHHHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHH
Confidence            7999999999866654                   346789999999999998888899999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.++... +++|+++|||
T Consensus        92 ~~~~~~~i~~~~-~~~piilvgn  113 (187)
T cd04129          92 RTKWIEEVRRYC-PNVPVILVGL  113 (187)
T ss_pred             HHHHHHHHHHhC-CCCCEEEEee
Confidence            7 6999998766 5799999998

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).

>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=99.84  E-value=6.3e-21  Score=103.47  Aligned_cols=82  Identities=26%  Similarity=0.559  Sum_probs=68.0

Q ss_pred             CCcceeeeeeccCccc----------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      ||||||+.++..+.+.                      ....+++||++|++.+...+...+.++|++++|||+++++||
T Consensus        10 ~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~   89 (119)
T PF08477_consen   10 VGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESL   89 (119)
T ss_dssp             SSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHH
T ss_pred             CCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHH
Confidence            7999999998876654                      333589999999999998888889999999999999999999


Q ss_pred             HHHHH---HHHHHHHhcCCCceEEEEeC
Q psy16649         59 DNIKN---WIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~---w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+   |+..++... .++|++||||
T Consensus        90 ~~~~~~~~~l~~~~~~~-~~~piilv~n  116 (119)
T PF08477_consen   90 EYLSQLLKWLKNIRKRD-KNIPIILVGN  116 (119)
T ss_dssp             HHHHHHHHHHHHHHHHS-SCSEEEEEEE
T ss_pred             HHHHHHHHHHHHHHccC-CCCCEEEEEe
Confidence            99865   455555544 5699999997

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.84  E-value=8.2e-21  Score=108.91  Aligned_cols=83  Identities=17%  Similarity=0.349  Sum_probs=71.6

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.++..++++++++++|||.+++++|+++..|+
T Consensus        25 ~GKTsL~~~l~~~~~~~~~~t~g~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  104 (173)
T cd04154          25 AGKTTILKKLLGEDIDTISPTLGFQIKTLEYEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKREL  104 (173)
T ss_pred             CCHHHHHHHHccCCCCCcCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999998766443               3467899999999999999999999999999999999999999999888


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .++... ...++|+++|||
T Consensus       105 ~~~~~~~~~~~~p~iiv~n  123 (173)
T cd04154         105 KELLQEERLAGATLLILAN  123 (173)
T ss_pred             HHHHhChhhcCCCEEEEEE
Confidence            887543 236899999997

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.

>KOG4252|consensus

Probab=99.84  E-value=2.4e-22  Score=115.46  Aligned_cols=82  Identities=30%  Similarity=0.577  Sum_probs=75.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .||||++.||..|.|.                    +.+.+++|||+|||.|..+...||++|.+.++||+-+|+.||+.
T Consensus        31 VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea  110 (246)
T KOG4252|consen   31 VGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEA  110 (246)
T ss_pred             cchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHH
Confidence            5999999999988887                    44566779999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|.+++.... ..+|.++|-|
T Consensus       111 ~~~w~~kv~~e~-~~IPtV~vqN  132 (246)
T KOG4252|consen  111 TLEWYNKVQKET-ERIPTVFVQN  132 (246)
T ss_pred             HHHHHHHHHHHh-ccCCeEEeec
Confidence            999999999887 6899999876

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.83  E-value=1.3e-20  Score=108.33  Aligned_cols=83  Identities=22%  Similarity=0.312  Sum_probs=72.2

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+++.+||++|++++...+..++++++++++|+|.+++++|..+..|+
T Consensus        26 ~GKTsl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l  105 (174)
T cd04153          26 AGKTTILYQFLLGEVVHTSPTIGSNVEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEEL  105 (174)
T ss_pred             CCHHHHHHHHccCCCCCcCCccccceEEEEECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999999877664               3478999999999999999999999999999999999999999998877


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..++|+++++|
T Consensus       106 ~~~~~~~~~~~~p~viv~N  124 (174)
T cd04153         106 YKMLAHEDLRKAVLLVLAN  124 (174)
T ss_pred             HHHHhchhhcCCCEEEEEE
Confidence            7775433 25799999987

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.83  E-value=2e-20  Score=106.47  Aligned_cols=82  Identities=26%  Similarity=0.519  Sum_probs=73.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      |||||++.++..+.+.                   ..+++++||++|++++...++.+++.+|++++|||+++++||..+
T Consensus        11 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   90 (171)
T cd00157          11 VGKTCLLISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENV   90 (171)
T ss_pred             CCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHH
Confidence            7999999999988762                   467899999999999999999999999999999999999999987


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|+..+.... ++.|+++|||
T Consensus        91 ~~~~~~~~~~~~-~~~p~ivv~n  112 (171)
T cd00157          91 KTKWIPEIRHYC-PNVPIILVGT  112 (171)
T ss_pred             HHHHHHHHHhhC-CCCCEEEEEc
Confidence            5 6888888766 5899999997

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.83  E-value=1.6e-20  Score=106.10  Aligned_cols=83  Identities=23%  Similarity=0.396  Sum_probs=73.0

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      |||||++.++..+.+.                ..+.+.+||++|++++..++..++++++++++|+|.+++++|..+..|
T Consensus        10 ~GKTsl~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~   89 (160)
T cd04156          10 AGKSTLLYKLKHAELVTTIPTVGFNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKE   89 (160)
T ss_pred             CCHHHHHHHHhcCCcccccCccCcceEEEEeCCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHH
Confidence            7999999999887663                357899999999999999999999999999999999999999999998


Q ss_pred             HHHHHHhc-CCCceEEEEeC
Q psy16649         65 IRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~-~~~~piilvgN   83 (83)
                      +.++.+.. ..+.|+++|+|
T Consensus        90 ~~~~~~~~~~~~~piilv~n  109 (160)
T cd04156          90 LKHILKNEHIKGVPVVLLAN  109 (160)
T ss_pred             HHHHHhchhhcCCCEEEEEE
Confidence            88876532 25799999997

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

>cd04148 RGK RGK subfamily

Probab=99.82  E-value=5.3e-20  Score=109.55  Aligned_cols=81  Identities=19%  Similarity=0.253  Sum_probs=68.5

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhcc-CCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYR-GAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~-~~~~~ilv~d~~~~~s~   58 (83)
                      +|||||+.++..+.|.                     ..+.+++|||+|++  ..+...+++ ++|++++|||+++++||
T Consensus        11 vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~iilV~d~td~~S~   88 (221)
T cd04148          11 VGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE--MWTEDSCMQYQGDAFVVVYSVTDRSSF   88 (221)
T ss_pred             CcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc--hHHHhHHhhcCCCEEEEEEECCCHHHH
Confidence            6999999999766552                     45778999999998  334566777 99999999999999999


Q ss_pred             HHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +++..|++++.+.. ..++|+++|||
T Consensus        89 ~~~~~~~~~l~~~~~~~~~piilV~N  114 (221)
T cd04148          89 ERASELRIQLRRNRQLEDRPIILVGN  114 (221)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999999998764 36899999998

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

>KOG0070|consensus

Probab=99.82  E-value=1.2e-19  Score=104.16  Aligned_cols=83  Identities=18%  Similarity=0.379  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||+++++..+++.               +++++++||.+||++++.+|+.||++++++|+|.|.+|++.+.+++.-+
T Consensus        28 AGKTTILykLk~~E~vttvPTiGfnVE~v~ykn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL  107 (181)
T KOG0070|consen   28 AGKTTILYKLKLGEIVTTVPTIGFNVETVEYKNISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEEL  107 (181)
T ss_pred             CCceeeeEeeccCCcccCCCccccceeEEEEcceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHH
Confidence            7999999999988876               7889999999999999999999999999999999999999999988655


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      ..+.... ..++|+++.||
T Consensus       108 ~~~l~~~~l~~~~llv~aN  126 (181)
T KOG0070|consen  108 HRMLAEPELRNAPLLVFAN  126 (181)
T ss_pred             HHHHcCcccCCceEEEEec
Confidence            5554443 36899999987

>cd00154 Rab Rab family

Probab=99.82  E-value=1e-19  Score=101.76  Aligned_cols=83  Identities=46%  Similarity=0.851  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+||++|++.+...+..++++++++++|+|.+++++++.
T Consensus        11 ~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~   90 (159)
T cd00154          11 VGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFEN   90 (159)
T ss_pred             CCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            7999999988766654                    34788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+..+.....+..|+++++|
T Consensus        91 ~~~~~~~~~~~~~~~~p~ivv~n  113 (159)
T cd00154          91 LDKWLKELKEYAPENIPIILVGN  113 (159)
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887667899999987

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.82  E-value=9.9e-20  Score=102.85  Aligned_cols=83  Identities=34%  Similarity=0.524  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++||++|++++..++..+++.++++++|||+++++||+++
T Consensus        11 ~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   90 (164)
T cd04139          11 VGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTAT   90 (164)
T ss_pred             CCHHHHHHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            7999999999876654                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|...+.+.. ..++|+++|+|
T Consensus        91 ~~~~~~~~~~~~~~~~piiiv~N  113 (164)
T cd04139          91 AEFREQILRVKDDDNVPLLLVGN  113 (164)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999988764 36899999997

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.82  E-value=7.9e-20  Score=103.39  Aligned_cols=83  Identities=19%  Similarity=0.295  Sum_probs=69.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||+++.++..+.+.               ..+++++|||+|+++++.+++.+++.++++++|+|.+++.++.....|+
T Consensus        10 ~GKTsl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~   89 (158)
T cd04151          10 AGKTTILYRLQLGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEEL   89 (158)
T ss_pred             CCHHHHHHHHccCCCcCcCCccCcCeEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999998665543               3468999999999999999999999999999999999999998877666


Q ss_pred             HHHHH-hcCCCceEEEEeC
Q psy16649         66 RNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~-~~~~~~piilvgN   83 (83)
                      ..+.+ ....+.|+++|+|
T Consensus        90 ~~~~~~~~~~~~piiiv~n  108 (158)
T cd04151          90 HAMLEEEELKGAVLLVFAN  108 (158)
T ss_pred             HHHHhchhhcCCcEEEEEe
Confidence            55433 2225799999997

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

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

Probab=99.81  E-value=1.1e-19  Score=102.52  Aligned_cols=83  Identities=19%  Similarity=0.381  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++..+.+.               ..+.+.+||++|++++..++..++++++++++|||++++++|..+..|+
T Consensus        10 ~GKssli~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~   89 (158)
T cd00878          10 AGKTTILYKLKLGEVVTTIPTIGFNVETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEEL   89 (158)
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcCcceEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999999887654               3478999999999999999999999999999999999999999999988


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      ..+.... ..+.|+++++|
T Consensus        90 ~~~~~~~~~~~~piiiv~n  108 (158)
T cd00878          90 HKLLNEEELKGVPLLIFAN  108 (158)
T ss_pred             HHHHhCcccCCCcEEEEee
Confidence            8876643 36899999997

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

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

Probab=99.81  E-value=1e-19  Score=105.57  Aligned_cols=83  Identities=19%  Similarity=0.310  Sum_probs=71.8

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+++.+||++|+++++.++..|+++++++++|+|.+++++|+....|+
T Consensus        28 ~GKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l  107 (184)
T smart00178       28 AGKTTLLHMLKNDRLAQHQPTQHPTSEELAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKREL  107 (184)
T ss_pred             CCHHHHHHHHhcCCCcccCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHH
Confidence            7999999999876542               3468899999999999999999999999999999999999999999888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|+++|+|
T Consensus       108 ~~l~~~~~~~~~piliv~N  126 (184)
T smart00178      108 DALLSDEELATVPFLILGN  126 (184)
T ss_pred             HHHHcChhhcCCCEEEEEe
Confidence            8775432 25789999997

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

>cd00876 Ras Ras family

Probab=99.81  E-value=2.1e-19  Score=101.03  Aligned_cols=83  Identities=34%  Similarity=0.625  Sum_probs=74.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      |||||++.++..+.+.                   ..+.+++||++|++.+..++..+++.++++++|||++++++++++
T Consensus        10 ~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   89 (160)
T cd00876          10 VGKSAITIQFVKGTFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEI   89 (160)
T ss_pred             CCHHHHHHHHHhCCCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            7999999998766543                   367899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|...+....+ ..+|+++|||
T Consensus        90 ~~~~~~~~~~~~~~~~p~ivv~n  112 (160)
T cd00876          90 KGYREQILRVKDDEDIPIVLVGN  112 (160)
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            999998887664 5899999997

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

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

Probab=99.80  E-value=2.6e-19  Score=103.01  Aligned_cols=83  Identities=33%  Similarity=0.570  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++||++|+++++.++..++..+++++++||+++.++|+.+
T Consensus        12 ~GKTtl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~   91 (180)
T cd04137          12 VGKSSLTVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVV   91 (180)
T ss_pred             CCHHHHHHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            7999999999877664                   346789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.|+..+.+.. ..+.|+++|+|
T Consensus        92 ~~~~~~~~~~~~~~~~p~ilv~N  114 (180)
T cd04137          92 KVIYDKILDMLGKESVPIVLVGN  114 (180)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99988887654 35789999997

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.79  E-value=4.5e-19  Score=102.83  Aligned_cols=83  Identities=22%  Similarity=0.350  Sum_probs=71.6

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++..+.+.               ..+.+++||++|++++..++..++++++++++|+|++++++|+....|+
T Consensus        30 ~GKStLi~~l~~~~~~~~~~T~~~~~~~i~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~  109 (190)
T cd00879          30 AGKTTLLHMLKDDRLAQHVPTLHPTSEELTIGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEEL  109 (190)
T ss_pred             CCHHHHHHHHhcCCCcccCCccCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHH
Confidence            7999999998875432               3467899999999999999999999999999999999999999998888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|++++||
T Consensus       110 ~~i~~~~~~~~~pvivv~N  128 (190)
T cd00879         110 DSLLSDEELANVPFLILGN  128 (190)
T ss_pred             HHHHcCccccCCCEEEEEe
Confidence            8886543 25699999998

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.78  E-value=5.6e-19  Score=100.36  Aligned_cols=83  Identities=24%  Similarity=0.368  Sum_probs=70.1

Q ss_pred             CCcceeeeeeccCcc------c----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGCF------Q----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~~------~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      ||||||+.++.....      .                ....+++|||+|++.+..++..++++++++++|+|.++++++
T Consensus        10 ~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~   89 (167)
T cd04160          10 AGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERF   89 (167)
T ss_pred             CCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHH
Confidence            799999998753211      0                347899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.+..|+..+.+.. ..++|+++++|
T Consensus        90 ~~~~~~~~~~~~~~~~~~~p~ilv~N  115 (167)
T cd04160          90 EESKSALEKVLRNEALEGVPLLILAN  115 (167)
T ss_pred             HHHHHHHHHHHhChhhcCCCEEEEEE
Confidence            99999988876643 36799999987

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.78  E-value=8.1e-19  Score=98.19  Aligned_cols=83  Identities=29%  Similarity=0.462  Sum_probs=71.4

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      |||||++.++..+.|.                ..+.+.+||++|+++++.++..+++.++++++|+|+++++++.....|
T Consensus        10 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~   89 (159)
T cd04159          10 SGKTTLVNVIAGGQFSEDTIPTVGFNMRKVTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNE   89 (159)
T ss_pred             CCHHHHHHHHccCCCCcCccCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHH
Confidence            7999999999887544                237799999999999999999999999999999999999999998888


Q ss_pred             HHHHHHhc-CCCceEEEEeC
Q psy16649         65 IRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~-~~~~piilvgN   83 (83)
                      +.++.... ..+.|+++|+|
T Consensus        90 ~~~~~~~~~~~~~p~iiv~n  109 (159)
T cd04159          90 LHDLLEKPSLEGIPLLVLGN  109 (159)
T ss_pred             HHHHHcChhhcCCCEEEEEe
Confidence            77775432 25789999987

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.

>KOG0096|consensus

Probab=99.77  E-value=5.1e-19  Score=102.18  Aligned_cols=82  Identities=26%  Similarity=0.505  Sum_probs=77.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||++..+...+.|.                    ..+++..|||+|||.+..++.-||-++.+.|++||++.+-++.+
T Consensus        21 ~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n  100 (216)
T KOG0096|consen   21 TGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKN  100 (216)
T ss_pred             ccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhc
Confidence            5999999999999998                    56899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|.+++.+.+ .++||+++||
T Consensus       101 ~~rwhrd~~rv~-~NiPiv~cGN  122 (216)
T KOG0096|consen  101 VPRWHRDLVRVR-ENIPIVLCGN  122 (216)
T ss_pred             chHHHHHHHHHh-cCCCeeeecc
Confidence            999999999988 5799999998

>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=99.77  E-value=1.1e-18  Score=100.78  Aligned_cols=83  Identities=22%  Similarity=0.446  Sum_probs=72.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||+++++..+.+.               ..+++.+||.+|++.++.+|+.|+++++++|+|.|.++++.+.+....+
T Consensus        25 sGKTtll~~l~~~~~~~~~pT~g~~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L  104 (175)
T PF00025_consen   25 SGKTTLLNRLKNGEISETIPTIGFNIEEIKYKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEEL  104 (175)
T ss_dssp             SSHHHHHHHHHSSSEEEEEEESSEEEEEEEETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHH
T ss_pred             cchHHHHHHhhhccccccCcccccccceeeeCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccch
Confidence            7999999999877654               4568999999999999999999999999999999999999999998877


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... -.++|+++++|
T Consensus       105 ~~ll~~~~~~~~piLIl~N  123 (175)
T PF00025_consen  105 KELLNDPELKDIPILILAN  123 (175)
T ss_dssp             HHHHTSGGGTTSEEEEEEE
T ss_pred             hhhcchhhcccceEEEEec
Confidence            7775532 25799999987

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 ....

>KOG0075|consensus

Probab=99.76  E-value=6.2e-18  Score=94.59  Aligned_cols=83  Identities=27%  Similarity=0.458  Sum_probs=72.7

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      |||||+......+.+.                ..+.+.+||.+||.+|+.+|+.|+++++++++|.|..+++.....+.-
T Consensus        31 sGKtt~Vn~ia~g~~~edmiptvGfnmrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~E  110 (186)
T KOG0075|consen   31 SGKTTLVNVIARGQYLEDMIPTVGFNMRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSE  110 (186)
T ss_pred             CCcceEEEEEeeccchhhhcccccceeEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHH
Confidence            7999999999998776                778999999999999999999999999999999999999998887765


Q ss_pred             HHHHHHhc-CCCceEEEEeC
Q psy16649         65 IRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~-~~~~piilvgN   83 (83)
                      ++.+.... -..+|+++.||
T Consensus       111 L~~LL~k~~l~gip~LVLGn  130 (186)
T KOG0075|consen  111 LHDLLDKPSLTGIPLLVLGN  130 (186)
T ss_pred             HHHHhcchhhcCCcEEEecc
Confidence            55554433 26899999998

>KOG1673|consensus

Probab=99.74  E-value=1.1e-17  Score=94.48  Aligned_cols=80  Identities=15%  Similarity=0.401  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .||||+...|+.+.+.                    ..+.+.|||.+|++++..+.+.-.+++-+++++||+++++++++
T Consensus        31 iGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnS  110 (205)
T KOG1673|consen   31 IGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNS  110 (205)
T ss_pred             cCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHH
Confidence            4999999999999985                    66889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEE
Q psy16649         61 IKNWIRNIEENASANVEKML   80 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piil   80 (83)
                      +..|+.+.+......+|+++
T Consensus       111 i~~WY~QAr~~NktAiPilv  130 (205)
T KOG1673|consen  111 IKEWYRQARGLNKTAIPILV  130 (205)
T ss_pred             HHHHHHHHhccCCccceEEe
Confidence            99999999887766788653

>KOG0073|consensus

Probab=99.74  E-value=9.9e-18  Score=94.94  Aligned_cols=83  Identities=18%  Similarity=0.325  Sum_probs=69.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||++..++....-.               +.++|++||.+||...++.|+.||.++||.|.|+|.+++..|++....+
T Consensus        27 sGKTti~~kl~~~~~~~i~pt~gf~Iktl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L  106 (185)
T KOG0073|consen   27 SGKTTIVKKLLGEDTDTISPTLGFQIKTLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQEL  106 (185)
T ss_pred             CCchhHHHHhcCCCccccCCccceeeEEEEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHH
Confidence            7999999998764433               7789999999999999999999999999999999999999999988766


Q ss_pred             HHHHH-hcCCCceEEEEeC
Q psy16649         66 RNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~-~~~~~~piilvgN   83 (83)
                      .++.. ..-...|+++++|
T Consensus       107 ~~lL~eerlaG~~~Lvlan  125 (185)
T KOG0073|consen  107 TELLVEERLAGAPLLVLAN  125 (185)
T ss_pred             HHHHhhhhhcCCceEEEEe
Confidence            55533 2224578888876

>KOG0071|consensus

Probab=99.72  E-value=3e-17  Score=91.25  Aligned_cols=83  Identities=22%  Similarity=0.420  Sum_probs=69.8

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||++++++.-+...               +++++++||.+||++.+.+|.+||.++.++|+|.|..+++..++.+.-+
T Consensus        28 aGKTtiLyKLkl~~~~~~ipTvGFnvetVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~EL  107 (180)
T KOG0071|consen   28 AGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNEL  107 (180)
T ss_pred             CCceehhhHHhcCCCcccccccceeEEEEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHH
Confidence            6999999998777655               8899999999999999999999999999999999999998888887544


Q ss_pred             HHHHHhcC-CCceEEEEeC
Q psy16649         66 RNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~~-~~~piilvgN   83 (83)
                      ..+..... .++|+++.+|
T Consensus       108 h~ii~~~em~~~~~LvlAN  126 (180)
T KOG0071|consen  108 HRIINDREMRDAIILILAN  126 (180)
T ss_pred             HHHhCCHhhhcceEEEEec
Confidence            44433221 5788888887

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

Probab=99.72  E-value=2.4e-17  Score=97.17  Aligned_cols=83  Identities=16%  Similarity=0.321  Sum_probs=69.9

Q ss_pred             CCcceeeeeeccCccc---------------e----EEEEEEEeCCCchhhhcchhhhccCC-cEEEEEEECCCh-hHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------H----NFHINYRDTAGQERFRTITTAYYRGA-MGIMLVYDITNE-KSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~----~~~l~i~Dt~g~~~~~~~~~~~~~~~-~~~ilv~d~~~~-~s~~   59 (83)
                      ||||+|+.++..+.+.               .    ...+.+||++|+++++..+..+++++ +++|+|+|.++. +++.
T Consensus        11 sGKTsL~~~l~~~~~~~t~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~   90 (203)
T cd04105          11 SGKTALFTKLTTGKYRSTVTSIEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLK   90 (203)
T ss_pred             CCHHHHHHHHhcCCCCCccCcEeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHH
Confidence            7999999999887765               1    46689999999999999999999999 999999999998 7888


Q ss_pred             HHHHHHHHHHHh---cCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEEN---ASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~---~~~~~piilvgN   83 (83)
                      .+..|+.++...   ..+.+|+++++|
T Consensus        91 ~~~~~l~~il~~~~~~~~~~pvliv~N  117 (203)
T cd04105          91 DVAEFLYDILTDLEKVKNKIPVLIACN  117 (203)
T ss_pred             HHHHHHHHHHHHHhhccCCCCEEEEec
Confidence            887776665332   236899999998

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

>KOG4423|consensus

Probab=99.71  E-value=1.1e-19  Score=104.88  Aligned_cols=83  Identities=28%  Similarity=0.559  Sum_probs=75.2

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||++++++.+..|.                     ..+++++||.+|||++..|...||+.+++..+|||+++.-+|+
T Consensus        36 vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe  115 (229)
T KOG4423|consen   36 VGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFE  115 (229)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEcccccccc
Confidence            5999999999998887                     6689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      .+.+|.+++....    +.++|+++.+|
T Consensus       116 ~~skwkqdldsk~qLpng~Pv~~vllan  143 (229)
T KOG4423|consen  116 PVSKWKQDLDSKLQLPNGTPVPCVLLAN  143 (229)
T ss_pred             HHHHHHHhccCcccCCCCCcchheeccc
Confidence            9999999997743    35788888776

>cd01890 LepA LepA subfamily

Probab=99.71  E-value=2e-17  Score=94.98  Aligned_cols=62  Identities=21%  Similarity=0.302  Sum_probs=52.8

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|..++..+++++|++|+|||.++..+++.+..|....    ..++|+++|+|
T Consensus        66 ~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~N  127 (179)
T cd01890          66 EYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVIN  127 (179)
T ss_pred             cEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEE
Confidence            567889999999999999999999999999999999988888777775432    14678999987

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.

>KOG3883|consensus

Probab=99.68  E-value=8.5e-17  Score=90.64  Aligned_cols=83  Identities=22%  Similarity=0.334  Sum_probs=69.6

Q ss_pred             CCcceeeeeeccCccc----------------------eEEEEEEEeCCCchhh-hcchhhhccCCcEEEEEEECCChhH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------HNFHINYRDTAGQERF-RTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------~~~~l~i~Dt~g~~~~-~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      .|||+++.++..++..                      -.=.|.++||+|-..+ ..+-.+|+.-+|++++|||..|++|
T Consensus        20 VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eS   99 (198)
T KOG3883|consen   20 VGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPES   99 (198)
T ss_pred             ccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHH
Confidence            5999999998887665                      2336889999998777 6788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         58 FDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        58 ~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      |+.++..-+++.+.. ...+||+++||
T Consensus       100 f~rv~llKk~Idk~KdKKEvpiVVLaN  126 (198)
T KOG3883|consen  100 FQRVELLKKEIDKHKDKKEVPIVVLAN  126 (198)
T ss_pred             HHHHHHHHHHHhhccccccccEEEEec
Confidence            999877766776644 36899999998

>cd04155 Arl3 Arl3 subfamily

Probab=99.68  E-value=2.1e-16  Score=90.27  Aligned_cols=83  Identities=19%  Similarity=0.306  Sum_probs=69.8

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      |||||++.++....+.               ....+.+||++|++++...+..++++++++++|+|+++..+|.....|+
T Consensus        25 ~GKStLl~~l~~~~~~~~~~t~g~~~~~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~  104 (173)
T cd04155          25 AGKTTILKQLASEDISHITPTQGFNIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAEL  104 (173)
T ss_pred             CCHHHHHHHHhcCCCcccCCCCCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            7999999998876432               3467889999999999999999999999999999999999999988877


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      ..+.+. ...++|+++++|
T Consensus       105 ~~~~~~~~~~~~p~ivv~n  123 (173)
T cd04155         105 VELLEEEKLAGVPVLVFAN  123 (173)
T ss_pred             HHHHhChhhcCCCEEEEEE
Confidence            766543 235799999987

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.

>KOG0074|consensus

Probab=99.66  E-value=3.2e-16  Score=87.34  Aligned_cols=83  Identities=28%  Similarity=0.424  Sum_probs=68.8

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      +|||+++.++......                ..++|++||.+||...+..|..||.+.|++|+|.|.+|+..|+++..-
T Consensus        28 AGKTT~LKqL~sED~~hltpT~GFn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~e  107 (185)
T KOG0074|consen   28 AGKTTFLKQLKSEDPRHLTPTNGFNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEE  107 (185)
T ss_pred             CcchhHHHHHccCChhhccccCCcceEEEeecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHH
Confidence            6999999987654332                669999999999999999999999999999999999999999999765


Q ss_pred             HHHHHH-hcCCCceEEEEeC
Q psy16649         65 IRNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~-~~~~~~piilvgN   83 (83)
                      +-++.+ ..-..+|+.+.+|
T Consensus       108 l~ELleeeKl~~vpvlIfan  127 (185)
T KOG0074|consen  108 LVELLEEEKLAEVPVLIFAN  127 (185)
T ss_pred             HHHHhhhhhhhccceeehhh
Confidence            555544 3336788888765

>cd01898 Obg Obg subfamily

Probab=99.63  E-value=5.2e-16  Score=88.28  Aligned_cols=83  Identities=12%  Similarity=0.136  Sum_probs=63.2

Q ss_pred             CCcceeeeeeccCcc-------c-----------e-EEEEEEEeCCCch----hhhcchhhhcc---CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCF-------Q-----------H-NFHINYRDTAGQE----RFRTITTAYYR---GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-------~-----------~-~~~l~i~Dt~g~~----~~~~~~~~~~~---~~~~~ilv~d~~~   54 (83)
                      +|||||+.++.....       .           . ..++.+|||+|+.    ....+...+++   .+|++++|+|.++
T Consensus        11 ~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~   90 (170)
T cd01898          11 AGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSG   90 (170)
T ss_pred             CCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCCCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCC
Confidence            799999999874321       1           1 2489999999963    22334444444   5999999999999


Q ss_pred             h-hHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 E-KSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~-~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      + ++++++..|.+++.+..+  ...|+++|+|
T Consensus        91 ~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~N  122 (170)
T cd01898          91 DDDPVEDYKTIRNELELYNPELLEKPRIVVLN  122 (170)
T ss_pred             CCCHHHHHHHHHHHHHHhCccccccccEEEEE
Confidence            9 899999999999987643  3688999987

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.

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

Probab=99.62  E-value=9.7e-16  Score=89.45  Aligned_cols=79  Identities=18%  Similarity=0.308  Sum_probs=61.2

Q ss_pred             CCcceeeeeecc--Cccc--------------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEE
Q psy16649          1 SGENLCTLQIFR--GCFQ--------------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGI   46 (83)
Q Consensus         1 ~GKss~~~~~~~--~~~~--------------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~   46 (83)
                      +|||||+.++..  +.|.                                +.+++++|||+|+++|...+..+++++|++
T Consensus        13 ~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~   92 (194)
T cd01891          13 HGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGV   92 (194)
T ss_pred             CCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEE
Confidence            699999999875  3221                                346889999999999999999999999999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         47 MLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        47 ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++|||.++. .+.....|+..+..   .++|+++|+|
T Consensus        93 ilV~d~~~~-~~~~~~~~~~~~~~---~~~p~iiv~N  125 (194)
T cd01891          93 LLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVIN  125 (194)
T ss_pred             EEEEECCCC-ccHHHHHHHHHHHH---cCCCEEEEEE
Confidence            999999874 23444445544432   4678888887

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.59  E-value=4.6e-15  Score=82.42  Aligned_cols=83  Identities=30%  Similarity=0.474  Sum_probs=71.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh-hHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE-KSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~-~s~~   59 (83)
                      +||||++.++..+.+.                    ..+.+.+||++|++++..++..+++++++++.++|+... .++.
T Consensus        12 ~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~   91 (161)
T TIGR00231        12 VGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVE   91 (161)
T ss_pred             CCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhh
Confidence            7999999998888764                    227889999999999999999999999999999999998 8888


Q ss_pred             HHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      ... .|...+......+.|+++++|
T Consensus        92 ~~~~~~~~~~~~~~~~~~p~ivv~n  116 (161)
T TIGR00231        92 EILEKQTKEIIHHAESNVPIILVGN  116 (161)
T ss_pred             hHhHHHHHHHHHhcccCCcEEEEEE
Confidence            776 788888776544889999987

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.

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

Probab=99.57  E-value=5.9e-15  Score=83.85  Aligned_cols=81  Identities=15%  Similarity=0.165  Sum_probs=59.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhh----------hcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERF----------RTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~----------~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +||||++.++..+.+.                  ..+.+++|||+|++..          ..+. .....++++++|+|.
T Consensus        11 ~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~-~~~~~~d~~l~v~d~   89 (168)
T cd01897          11 VGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAIT-ALAHLRAAVLFLFDP   89 (168)
T ss_pred             CCHHHHHHHHhcCCCccCCCCCcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHH-HHHhccCcEEEEEeC
Confidence            6999999998886653                  2268999999998421          1111 112236899999999


Q ss_pred             CChhHH--HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSF--DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~--~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++++++  +....|++.+++.. .+.|+++|+|
T Consensus        90 ~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~N  121 (168)
T cd01897          90 SETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLN  121 (168)
T ss_pred             CcccccchHHHHHHHHHHHhhc-CcCCeEEEEE
Confidence            998764  66678888887654 5799999987

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.57  E-value=2.5e-14  Score=78.58  Aligned_cols=83  Identities=41%  Similarity=0.762  Sum_probs=68.5

Q ss_pred             CCcceeeeeeccCcc-c-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCF-Q-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      |||||++.++..... .                   ....+.+||++|++.+......+++.++++++|+|.+++.+++.
T Consensus         7 ~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~   86 (157)
T cd00882           7 VGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFEN   86 (157)
T ss_pred             CcHHHHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            799999999876554 1                   37789999999999998888999999999999999999999999


Q ss_pred             HHHHHHHH-HHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNI-EENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~-~~~~~~~~piilvgN   83 (83)
                      +..|.... ........|+++++|
T Consensus        87 ~~~~~~~~~~~~~~~~~~~ivv~n  110 (157)
T cd00882          87 VKEWLLLILINKEGENIPIILVGN  110 (157)
T ss_pred             HHHHHHHHHHhhccCCCcEEEEEe
Confidence            99883332 333347899999886

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

>cd04171 SelB SelB subfamily

Probab=99.57  E-value=8.1e-15  Score=82.69  Aligned_cols=77  Identities=13%  Similarity=0.127  Sum_probs=56.1

Q ss_pred             CCcceeeeeeccC---ccc------------------e-EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---h
Q psy16649          1 SGENLCTLQIFRG---CFQ------------------H-NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---E   55 (83)
Q Consensus         1 ~GKss~~~~~~~~---~~~------------------~-~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~   55 (83)
                      +||||++.++...   .+.                  . ...+++|||+|+++|......+++++|++++|+|.++   +
T Consensus        11 ~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~   90 (164)
T cd04171          11 HGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMP   90 (164)
T ss_pred             CCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccH
Confidence            7999999998731   111                  1 4678999999999998777788999999999999987   5


Q ss_pred             hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++++.+..    ++. . ...|+++|+|
T Consensus        91 ~~~~~~~~----~~~-~-~~~~~ilv~N  112 (164)
T cd04171          91 QTREHLEI----LEL-L-GIKRGLVVLT  112 (164)
T ss_pred             hHHHHHHH----HHH-h-CCCcEEEEEE
Confidence            55544432    221 1 2248888887

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

>cd01878 HflX HflX subfamily

Probab=99.56  E-value=8.4e-15  Score=85.91  Aligned_cols=82  Identities=16%  Similarity=0.137  Sum_probs=63.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch---------hhhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE---------RFRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~---------~~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      |||||++.++..+.+.                   ....+.+|||+|..         .+.... ..+..+|++++|+|.
T Consensus        52 ~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~  130 (204)
T cd01878          52 AGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDA  130 (204)
T ss_pred             CCHHHHHHHHhcchhccCCccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEEC
Confidence            7999999988776421                   12378899999972         222222 246789999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++.++..++.|.+.+......+.|+++|+|
T Consensus       131 ~~~~~~~~~~~~~~~l~~~~~~~~~viiV~N  161 (204)
T cd01878         131 SDPDYEEQIETVEKVLKELGAEDIPMILVLN  161 (204)
T ss_pred             CCCChhhHHHHHHHHHHHcCcCCCCEEEEEE
Confidence            9999999988888888765546789999997

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.

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

Probab=99.55  E-value=1.3e-14  Score=82.23  Aligned_cols=76  Identities=21%  Similarity=0.175  Sum_probs=59.2

Q ss_pred             CCcceeeeeeccCccc------------------e---EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh---h
Q psy16649          1 SGENLCTLQIFRGCFQ------------------H---NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE---K   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~---~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~---~   56 (83)
                      +||||++.++..+.+.                  .   ...+.+|||+|++.|..++..+++.+|++++|+|.++.   +
T Consensus        11 ~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~   90 (168)
T cd01887          11 HGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQ   90 (168)
T ss_pred             CCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHH
Confidence            7999999998877653                  1   45789999999999999999999999999999999984   4


Q ss_pred             HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         57 SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        57 s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..+.    .+..   .+.|+++|+|
T Consensus        91 ~~~~~~----~~~~---~~~p~ivv~N  110 (168)
T cd01887          91 TIEAIK----LAKA---ANVPFIVALN  110 (168)
T ss_pred             HHHHHH----HHHH---cCCCEEEEEE
Confidence            443332    2222   4578888887

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.52  E-value=4.4e-15  Score=82.57  Aligned_cols=75  Identities=16%  Similarity=0.060  Sum_probs=55.6

Q ss_pred             CCcceeeeeeccCccc------eEEEEEEEeCCCc-----hhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------HNFHINYRDTAGQ-----ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIE   69 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------~~~~l~i~Dt~g~-----~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~   69 (83)
                      +|||||+.++..+.+.      ..+.-.+|||+|+     +.++.+.+ .++++|++++|||+++++++.. ..|.+.+ 
T Consensus        11 vGKSsL~~~l~~~~~~~~~t~~~~~~~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~~~~s~~~-~~~~~~~-   87 (142)
T TIGR02528        11 CGKTTLTQALQGEEILYKKTQAVEYNDGAIDTPGEYVENRRLYSALIV-TAADADVIALVQSATDPESRFP-PGFASIF-   87 (142)
T ss_pred             CCHHHHHHHHcCCccccccceeEEEcCeeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCCCCCcCCC-hhHHHhc-
Confidence            6999999999887664      1223368999998     34555544 5899999999999999999866 3454332 


Q ss_pred             HhcCCCceEEEEeC
Q psy16649         70 ENASANVEKMLLGN   83 (83)
Q Consensus        70 ~~~~~~~piilvgN   83 (83)
                           ..|+++|+|
T Consensus        88 -----~~p~ilv~N   96 (142)
T TIGR02528        88 -----VKPVIGLVT   96 (142)
T ss_pred             -----cCCeEEEEE
Confidence                 138888887

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.52  E-value=3.2e-14  Score=89.80  Aligned_cols=82  Identities=18%  Similarity=0.186  Sum_probs=63.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCc---------hhhhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQ---------ERFRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~---------~~~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +||||++.++....+.                   ....+.+|||+|.         +.|.... ..+++||++++|+|.
T Consensus       200 vGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~VvD~  278 (351)
T TIGR03156       200 AGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHVVDA  278 (351)
T ss_pred             CCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEEEEC
Confidence            6999999998775421                   2357889999997         3343332 358899999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++.+++.+..|.+.+.+....+.|+++|+|
T Consensus       279 s~~~~~~~~~~~~~~L~~l~~~~~piIlV~N  309 (351)
T TIGR03156       279 SDPDREEQIEAVEKVLEELGAEDIPQLLVYN  309 (351)
T ss_pred             CCCchHHHHHHHHHHHHHhccCCCCEEEEEE
Confidence            9999998888887777665445789999987

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

Probab=99.51  E-value=1.2e-14  Score=83.18  Aligned_cols=67  Identities=30%  Similarity=0.474  Sum_probs=57.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHh-cCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~-~~~~~piilvgN   83 (83)
                      ....+.+||.+||+..+++|..||..+|++|+++|.++++.|+....-++.+.++ .-..+|+++.+|
T Consensus        67 ~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lan  134 (197)
T KOG0076|consen   67 CNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLAN  134 (197)
T ss_pred             ccceeEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcc
Confidence            5567889999999999999999999999999999999999999988766666443 236788888776

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

Probab=99.49  E-value=6.1e-14  Score=79.97  Aligned_cols=83  Identities=14%  Similarity=0.092  Sum_probs=63.1

Q ss_pred             CCcceeeeeeccCccc------------------e-EEEEEEEeCCCchh----hhcch---hhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------H-NFHINYRDTAGQER----FRTIT---TAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~-~~~l~i~Dt~g~~~----~~~~~---~~~~~~~~~~ilv~d~~~   54 (83)
                      +||||++.++....+.                  . ...+.+|||+|...    .+.+.   ..++++++++++|+|.++
T Consensus         7 ~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~   86 (176)
T cd01881           7 VGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASE   86 (176)
T ss_pred             CcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccC
Confidence            6999999998776420                  2 56789999999733    22232   345778999999999999


Q ss_pred             h------hHHHHHHHHHHHHHHhcC-------CCceEEEEeC
Q psy16649         55 E------KSFDNIKNWIRNIEENAS-------ANVEKMLLGN   83 (83)
Q Consensus        55 ~------~s~~~~~~w~~~~~~~~~-------~~~piilvgN   83 (83)
                      .      .++++++.|..++.....       .+.|+++|+|
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~N  128 (176)
T cd01881          87 DDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLN  128 (176)
T ss_pred             CccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEE
Confidence            8      689999889888876542       3789999987

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.48  E-value=7.3e-14  Score=93.05  Aligned_cols=62  Identities=19%  Similarity=0.263  Sum_probs=52.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+++++|||+|+++|...+..+++.+|++|+|+|.++..+++....|.....    .++|+++|+|
T Consensus        69 ~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViN  130 (595)
T TIGR01393        69 TYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVIN  130 (595)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEE
Confidence            3789999999999999999999999999999999999877777777754432    3678999987

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.46  E-value=1.1e-13  Score=90.10  Aligned_cols=79  Identities=18%  Similarity=0.160  Sum_probs=59.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--------hhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--------FRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--------~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++..+.+.                   ....+.+|||+|++.        +......+++.+|++|+|+|.+
T Consensus        49 vGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~  128 (472)
T PRK03003         49 VGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDAT  128 (472)
T ss_pred             CCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            6999999999876532                   124588999999762        4455677899999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..++.. ..|.+.++.   .+.|+++|+|
T Consensus       129 ~~~s~~~-~~i~~~l~~---~~~piilV~N  154 (472)
T PRK03003        129 VGATATD-EAVARVLRR---SGKPVILAAN  154 (472)
T ss_pred             CCCCHHH-HHHHHHHHH---cCCCEEEEEE
Confidence            9877543 344444442   4689999998

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.45  E-value=1.2e-13  Score=89.42  Aligned_cols=78  Identities=17%  Similarity=0.166  Sum_probs=59.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc--------chhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT--------ITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~--------~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++......                   ....+.+|||+|+.++..        ....+++++|++++|||.+
T Consensus       214 vGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s  293 (442)
T TIGR00450       214 VGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDAS  293 (442)
T ss_pred             CcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECC
Confidence            6999999998875421                   234678999999855432        2346889999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+++..  |+.++..   .+.|+++|+|
T Consensus       294 ~~~s~~~~--~l~~~~~---~~~piIlV~N  318 (442)
T TIGR00450       294 QPLTKDDF--LIIDLNK---SKKPFILVLN  318 (442)
T ss_pred             CCCChhHH--HHHHHhh---CCCCEEEEEE
Confidence            99988876  7666542   4679999987

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.

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

Probab=99.45  E-value=2.5e-13  Score=76.27  Aligned_cols=77  Identities=14%  Similarity=0.043  Sum_probs=56.3

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc------chhhhcc--CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT------ITTAYYR--GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~------~~~~~~~--~~~~~ilv~d~~~   54 (83)
                      +||||++.++....+.                  ....+.+|||+|++.+..      ++..++.  +++++++|+|.++
T Consensus         7 ~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~   86 (158)
T cd01879           7 VGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATN   86 (158)
T ss_pred             CCHHHHHHHHhcCcccccCCCCcccccceEEEeeCCeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCc
Confidence            6999999998765422                  225688999999987764      3566775  9999999999998


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++.   ..|..++.+   .+.|+++|+|
T Consensus        87 ~~~~---~~~~~~~~~---~~~~~iiv~N  109 (158)
T cd01879          87 LERN---LYLTLQLLE---LGLPVVVALN  109 (158)
T ss_pred             chhH---HHHHHHHHH---cCCCEEEEEe
Confidence            6553   234444433   3688999887

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.44  E-value=2e-13  Score=85.79  Aligned_cols=83  Identities=13%  Similarity=0.125  Sum_probs=63.0

Q ss_pred             CCcceeeeeeccCc-------cc------------eEEEEEEEeCCCchh----hhcchhh---hccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGC-------FQ------------HNFHINYRDTAGQER----FRTITTA---YYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~-------~~------------~~~~l~i~Dt~g~~~----~~~~~~~---~~~~~~~~ilv~d~~~   54 (83)
                      +|||||+.++....       |.            ...++.+||++|.-.    ...+...   ++..++++++|+|+++
T Consensus       169 aGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~  248 (335)
T PRK12299        169 AGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEA  248 (335)
T ss_pred             CCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCC
Confidence            79999999987532       11            224689999999632    2233333   4557999999999999


Q ss_pred             hhHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      ++++++++.|.+++..+.+  .+.|+++|+|
T Consensus       249 ~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~N  279 (335)
T PRK12299        249 VDPVEDYKTIRNELEKYSPELADKPRILVLN  279 (335)
T ss_pred             CCCHHHHHHHHHHHHHhhhhcccCCeEEEEE
Confidence            8899999999999988753  4689999987

>KOG1707|consensus

Probab=99.43  E-value=1.3e-13  Score=90.48  Aligned_cols=83  Identities=24%  Similarity=0.342  Sum_probs=73.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      ||||||+..+....|+                  ..+-..|.|++..+.-+.....-+++|+++.++|++++++|++.++
T Consensus        20 ~GKtSLImSL~~eef~~~VP~rl~~i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~is   99 (625)
T KOG1707|consen   20 VGKTSLIMSLLEEEFVDAVPRRLPRILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRIS   99 (625)
T ss_pred             ccHHHHHHHHHhhhccccccccCCccccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhh
Confidence            7999999999999988                  5666889999876665666677899999999999999999999997


Q ss_pred             -HHHHHHHHhcC--CCceEEEEeC
Q psy16649         63 -NWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        63 -~w~~~~~~~~~--~~~piilvgN   83 (83)
                       .|++.+++..+  ..+|||||||
T Consensus       100 t~WLPlir~~~~~~~~~PVILvGN  123 (625)
T KOG1707|consen  100 TKWLPLIRQLFGDYHETPVILVGN  123 (625)
T ss_pred             hhhhhhhhcccCCCccCCEEEEee
Confidence             89999998663  5899999998

>PRK04213 GTP-binding protein; Provisional

Probab=99.43  E-value=1.9e-14  Score=84.20  Aligned_cols=83  Identities=17%  Similarity=0.205  Sum_probs=52.1

Q ss_pred             CCcceeeeeeccCccc-----------e---EEEEEEEeCCC-----------chhhhcchhhhcc-CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-----------H---NFHINYRDTAG-----------QERFRTITTAYYR-GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------~---~~~l~i~Dt~g-----------~~~~~~~~~~~~~-~~~~~ilv~d~~~   54 (83)
                      +|||||+.++..+.+.           .   .-.+.+|||+|           +++++.++..|++ +++++.+++.+.+
T Consensus        20 ~GKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d   99 (201)
T PRK04213         20 VGKSTLVRELTGKKVRVGKRPGVTRKPNHYDWGDFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVD   99 (201)
T ss_pred             CCHHHHHHHHhCCCCccCCCCceeeCceEEeecceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEe
Confidence            6999999999876653           1   11588999999           7889888888876 4444433333334


Q ss_pred             hhHHHHH-HHHHH--------H-HHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNI-KNWIR--------N-IEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~-~~w~~--------~-~~~~~~~~~piilvgN   83 (83)
                      ..++.++ +.|.+        + +......++|+++|+|
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~N  138 (201)
T PRK04213        100 GKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVN  138 (201)
T ss_pred             CccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEE
Confidence            4444333 23421        1 1111225789999987

>KOG0072|consensus

Probab=99.41  E-value=1.2e-12  Score=73.27  Aligned_cols=83  Identities=16%  Similarity=0.278  Sum_probs=66.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH-HH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK-NW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~w   64 (83)
                      +|||++.++...+.-.               ++.++++||.+||-..+..|+.||.+.+++|+|.|.+|++...-.. .+
T Consensus        29 aGkttIlyrlqvgevvttkPtigfnve~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el  108 (182)
T KOG0072|consen   29 AGKTTILYRLQVGEVVTTKPTIGFNVETVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVEL  108 (182)
T ss_pred             CCeeEEEEEcccCcccccCCCCCcCccccccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHH
Confidence            6999999998887654               7889999999999999999999999999999999999998776655 34


Q ss_pred             HHHHHHhcCCCceEEEEeC
Q psy16649         65 IRNIEENASANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~~~~~piilvgN   83 (83)
                      +..+.+..-....+++++|
T Consensus       109 ~~mL~E~eLq~a~llv~an  127 (182)
T KOG0072|consen  109 YSMLQEEELQHAKLLVFAN  127 (182)
T ss_pred             HHHhccHhhcCceEEEEec
Confidence            4455443223466666665

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

Probab=99.41  E-value=3.9e-13  Score=89.47  Aligned_cols=56  Identities=18%  Similarity=0.193  Sum_probs=47.0

Q ss_pred             EEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         21 INYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        21 l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|||+|++.|..++..+++.+|++++|+|.++   +++++.+..+    +.   .++|+++++|
T Consensus        71 l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l----~~---~~vpiIVv~N  129 (590)
T TIGR00491        71 LLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM---YKTPFVVAAN  129 (590)
T ss_pred             EEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHH----HH---cCCCEEEEEE
Confidence            8899999999999999999999999999999997   6777665433    11   3678999987

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.40  E-value=6.7e-13  Score=86.49  Aligned_cols=79  Identities=18%  Similarity=0.113  Sum_probs=59.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCc----------hhhhcch-hhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQ----------ERFRTIT-TAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~----------~~~~~~~-~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++....+.                   ....+.+|||+|.          +.|..++ ..+++++|++++|+
T Consensus       222 vGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~  301 (472)
T PRK03003        222 VGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLI  301 (472)
T ss_pred             CCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEE
Confidence            6999999999876541                   2235689999994          5555554 34689999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+++.++ ++..+.+   .+.|+++|+|
T Consensus       302 Da~~~~s~~~~~-~~~~~~~---~~~piIiV~N  330 (472)
T PRK03003        302 DASEPISEQDQR-VLSMVIE---AGRALVLAFN  330 (472)
T ss_pred             eCCCCCCHHHHH-HHHHHHH---cCCCEEEEEE
Confidence            999999988875 4444432   4689999987

>cd04167 Snu114p Snu114p subfamily

Probab=99.39  E-value=6.6e-13  Score=78.65  Aligned_cols=62  Identities=24%  Similarity=0.309  Sum_probs=49.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+.+|||+|+++|......+++.+|++++|+|.++..++.. +.|++....   .+.|+++|+|
T Consensus        70 ~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviN  131 (213)
T cd04167          70 SYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVIN  131 (213)
T ss_pred             EEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEE
Confidence            4789999999999998888999999999999999988776643 344444432   3488999887

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.38  E-value=7.9e-13  Score=82.93  Aligned_cols=83  Identities=8%  Similarity=0.096  Sum_probs=63.3

Q ss_pred             CCcceeeeeeccCcc-------c------------eEEEEEEEeCCCchh----hhcchhhhcc---CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCF-------Q------------HNFHINYRDTAGQER----FRTITTAYYR---GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-------~------------~~~~l~i~Dt~g~~~----~~~~~~~~~~---~~~~~ilv~d~~~   54 (83)
                      +|||||+.++.....       .            ....+.+||++|...    ...+...+++   .++++++|+|+++
T Consensus       168 aGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~  247 (329)
T TIGR02729       168 AGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISP  247 (329)
T ss_pred             CCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCcc
Confidence            699999999876542       1            126889999999742    2234445544   6999999999998


Q ss_pred             h---hHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 E---KSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~---~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      .   +++++++.|.+++....+  .+.|++||+|
T Consensus       248 ~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~N  281 (329)
T TIGR02729       248 LDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLN  281 (329)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEe
Confidence            7   789999999998877643  4689999987

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.37  E-value=1.5e-12  Score=74.85  Aligned_cols=79  Identities=19%  Similarity=0.219  Sum_probs=60.9

Q ss_pred             CCcceeeeeeccCccc----------------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEE
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGI   46 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~   46 (83)
                      +||||++..+......                                  ....+.+|||+|+.++...+..+++.+|++
T Consensus        10 ~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d~~   89 (189)
T cd00881          10 HGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGLSVSDGA   89 (189)
T ss_pred             CCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHHHhcCEE
Confidence            6999999998655443                                  135789999999999999999999999999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         47 MLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        47 ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++|+|.++..+... ..++..+..   .+.|+++|+|
T Consensus        90 i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~n  122 (189)
T cd00881          90 ILVVDANEGVQPQT-REHLRIARE---GGLPIIVAIN  122 (189)
T ss_pred             EEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEE
Confidence            99999988765443 334444433   4688888876

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.37  E-value=1.5e-12  Score=84.10  Aligned_cols=83  Identities=19%  Similarity=0.161  Sum_probs=60.2

Q ss_pred             CCcceeeeeeccCccc-------------eE------EEEEEEeCCCchhh--hcch------hhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------HN------FHINYRDTAGQERF--RTIT------TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~~------~~l~i~Dt~g~~~~--~~~~------~~~~~~~~~~ilv~d~~   53 (83)
                      +||||+++++....+.             ..      ..+.+|||+|..+.  ..++      ...++.||++++|+|.+
T Consensus       208 aGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS  287 (426)
T PRK11058        208 AGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAA  287 (426)
T ss_pred             CCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCC
Confidence            7999999997764321             11      25679999998432  1222      23468999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+++.+..|.+.+.+....+.|+++|+|
T Consensus       288 ~~~~~e~l~~v~~iL~el~~~~~pvIiV~N  317 (426)
T PRK11058        288 DVRVQENIEAVNTVLEEIDAHEIPTLLVMN  317 (426)
T ss_pred             CccHHHHHHHHHHHHHHhccCCCCEEEEEE
Confidence            999998887666655554445789999987

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.36  E-value=1.4e-12  Score=88.55  Aligned_cols=76  Identities=21%  Similarity=0.246  Sum_probs=59.2

Q ss_pred             CCcceeeeeeccCccc----------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---h
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---E   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~   55 (83)
                      +|||||+.++....+.                      ....+.+|||+|++.|..++..+++.+|++|+|+|.++   +
T Consensus       255 vGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~  334 (742)
T CHL00189        255 HGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKP  334 (742)
T ss_pred             CCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCCh
Confidence            6999999887654332                      13788999999999999999999999999999999987   4


Q ss_pred             hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++++.+..    +   ...++|+++++|
T Consensus       335 QT~E~I~~----~---k~~~iPiIVViN  355 (742)
T CHL00189        335 QTIEAINY----I---QAANVPIIVAIN  355 (742)
T ss_pred             hhHHHHHH----H---HhcCceEEEEEE
Confidence            55544432    2   124689999987

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.36  E-value=7.9e-13  Score=85.79  Aligned_cols=77  Identities=13%  Similarity=0.058  Sum_probs=58.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcc--------hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTI--------TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~--------~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++......                   ....+.+|||+|.+.+...        ...+++++|++++|+|.+
T Consensus       226 vGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s  305 (449)
T PRK05291        226 VGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDAS  305 (449)
T ss_pred             CCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCC
Confidence            6999999998765431                   2356899999998654332        234788999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+++....|..      ..+.|+++|+|
T Consensus       306 ~~~s~~~~~~l~~------~~~~piiiV~N  329 (449)
T PRK05291        306 EPLTEEDDEILEE------LKDKPVIVVLN  329 (449)
T ss_pred             CCCChhHHHHHHh------cCCCCcEEEEE
Confidence            9998887665543      25789999987

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.33  E-value=1.6e-12  Score=88.75  Aligned_cols=76  Identities=18%  Similarity=0.206  Sum_probs=58.1

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~   59 (83)
                      +|||||+.++..+.+.                  ....+.+|||+|++.|..++...++.+|++|+|+|.++   +++++
T Consensus       301 ~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e  380 (787)
T PRK05306        301 HGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNGGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIE  380 (787)
T ss_pred             CCHHHHHHHHHhCCccccccCceeeeccEEEEEECCEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHH
Confidence            6999999887543322                  13578999999999999999999999999999999987   45544


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.       .....++|+++++|
T Consensus       381 ~i~-------~a~~~~vPiIVviN  397 (787)
T PRK05306        381 AIN-------HAKAAGVPIIVAIN  397 (787)
T ss_pred             HHH-------HHHhcCCcEEEEEE
Confidence            332       11224688999887

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

Probab=99.32  E-value=3.3e-12  Score=71.41  Aligned_cols=77  Identities=13%  Similarity=0.050  Sum_probs=57.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc--------chhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT--------ITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~--------~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++....+.                   ....+.+|||+|...+..        ....++..+|++++|+|++
T Consensus        12 ~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~   91 (157)
T cd04164          12 VGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDAS   91 (157)
T ss_pred             CCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECC
Confidence            6999999888765431                   235789999999765432        1235677999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+....+.|..      ....|+++|+|
T Consensus        92 ~~~~~~~~~~~~~------~~~~~vi~v~n  115 (157)
T cd04164          92 RGLDEEDLEILEL------PADKPIIVVLN  115 (157)
T ss_pred             CCCCHHHHHHHHh------hcCCCEEEEEE
Confidence            9888887765543      35788898886

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.32  E-value=2.2e-12  Score=85.89  Aligned_cols=76  Identities=20%  Similarity=0.221  Sum_probs=57.6

Q ss_pred             CCcceeeeeeccCccc------------------eEE-EEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNF-HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~-~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~   58 (83)
                      +|||||+.++....+.                  ... .+.+|||+|+++|..++...++.+|++++|+|.++   ++++
T Consensus        98 ~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~  177 (587)
T TIGR00487        98 HGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTI  177 (587)
T ss_pred             CCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCcEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHH
Confidence            6999999987654432                  012 78899999999999999999999999999999886   3444


Q ss_pred             HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.       .....++|+++++|
T Consensus       178 e~i~-------~~~~~~vPiIVviN  195 (587)
T TIGR00487       178 EAIS-------HAKAANVPIIVAIN  195 (587)
T ss_pred             HHHH-------HHHHcCCCEEEEEE
Confidence            3321       11224688999887

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.30  E-value=3.7e-12  Score=76.82  Aligned_cols=63  Identities=17%  Similarity=0.205  Sum_probs=50.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..++++|||+|+.+|...+..+++.+|++++|+|.++.... ..+.|++.+++   .++|+++++|
T Consensus        62 ~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvN  124 (237)
T cd04168          62 EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVN  124 (237)
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEE
Confidence            467899999999999998889999999999999999986543 34455555543   3578888877

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.30  E-value=5e-12  Score=84.49  Aligned_cols=62  Identities=21%  Similarity=0.278  Sum_probs=50.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|...+..+++.+|++|+|+|.++....+....|.....    .++|+++|+|
T Consensus        73 ~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViN  134 (600)
T PRK05433         73 TYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLN  134 (600)
T ss_pred             cEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEE
Confidence            5789999999999999999999999999999999998766666666643321    4678888887

>cd01894 EngA1 EngA1 subfamily

Probab=99.30  E-value=3.6e-12  Score=71.32  Aligned_cols=79  Identities=14%  Similarity=0.013  Sum_probs=54.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc--------chhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT--------ITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~--------~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++......                   ....+.+|||+|.+.+..        .....++++|++++++|..
T Consensus         8 ~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~   87 (157)
T cd01894           8 VGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGR   87 (157)
T ss_pred             CCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEecc
Confidence            6999999888654311                   235789999999877543        3346778999999999998


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+..... ..+.+++   ...|+++|+|
T Consensus        88 ~~~~~~~~~-~~~~~~~---~~~piiiv~n  113 (157)
T cd01894          88 EGLTPADEE-IAKYLRK---SKKPVILVVN  113 (157)
T ss_pred             ccCCccHHH-HHHHHHh---cCCCEEEEEE
Confidence            765544321 2222222   2488888886

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.29  E-value=6.1e-12  Score=81.11  Aligned_cols=77  Identities=19%  Similarity=0.098  Sum_probs=56.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--------hhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--------FRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--------~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++......                   ....+.+|||+|++.        +......+++.+|++++|+|.+
T Consensus        12 vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~   91 (435)
T PRK00093         12 VGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGR   91 (435)
T ss_pred             CCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            6999999998765421                   236789999999986        3344566789999999999998


Q ss_pred             ChhHHH--HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFD--NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~--~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+..  .+.+|+..      .+.|+++|+|
T Consensus        92 ~~~~~~~~~~~~~l~~------~~~piilv~N  117 (435)
T PRK00093         92 AGLTPADEEIAKILRK------SNKPVILVVN  117 (435)
T ss_pred             CCCCHHHHHHHHHHHH------cCCcEEEEEE
Confidence            854432  23344432      2689999987

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.26  E-value=1.3e-11  Score=82.27  Aligned_cols=56  Identities=21%  Similarity=0.251  Sum_probs=46.9

Q ss_pred             EEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         21 INYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        21 l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|||+|++.|..++...++.+|++++|+|.++   +++++.+..+    +.   .++|+++++|
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~----~~---~~vpiIvviN  131 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINIL----KR---RKTPFVVAAN  131 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHH----HH---cCCCEEEEEE
Confidence            6899999999999999999999999999999998   7777766532    21   3688888887

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.24  E-value=1.8e-11  Score=79.00  Aligned_cols=83  Identities=10%  Similarity=0.112  Sum_probs=62.3

Q ss_pred             CCcceeeeeeccCcc-----c-------------e-EEEEEEEeCCCch----hhhcchhhhcc---CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCF-----Q-------------H-NFHINYRDTAGQE----RFRTITTAYYR---GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-----~-------------~-~~~l~i~Dt~g~~----~~~~~~~~~~~---~~~~~ilv~d~~~   54 (83)
                      +|||||+.++.....     +             . ...+.+||++|..    ....+...|++   .++++++|+|+++
T Consensus       169 aGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~  248 (424)
T PRK12297        169 VGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSG  248 (424)
T ss_pred             CCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCc
Confidence            699999999875431     1             1 3578999999963    22334455544   5899999999986


Q ss_pred             h---hHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 E---KSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~---~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      .   +++++...|.+++..+.+  .+.|++||+|
T Consensus       249 ~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~N  282 (424)
T PRK12297        249 SEGRDPIEDYEKINKELKLYNPRLLERPQIVVAN  282 (424)
T ss_pred             cccCChHHHHHHHHHHHhhhchhccCCcEEEEEe
Confidence            5   788888999999987653  4689999987

>PRK15494 era GTPase Era; Provisional

Probab=99.23  E-value=2e-11  Score=76.94  Aligned_cols=78  Identities=22%  Similarity=0.274  Sum_probs=53.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch-hhhcchh-------hhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE-RFRTITT-------AYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~-~~~~~~~-------~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                   ....+.+|||+|+. .+..+..       ..++++|++++|+|.+
T Consensus        63 vGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~  142 (339)
T PRK15494         63 SGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSL  142 (339)
T ss_pred             CCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECC
Confidence            6999999998776552                   23578899999984 3333222       3477999999999865


Q ss_pred             ChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +  +|.++. .|++.+++.   +.|.++|+|
T Consensus       143 ~--s~~~~~~~il~~l~~~---~~p~IlViN  168 (339)
T PRK15494        143 K--SFDDITHNILDKLRSL---NIVPIFLLN  168 (339)
T ss_pred             C--CCCHHHHHHHHHHHhc---CCCEEEEEE
Confidence            4  666665 455555433   345567877

>cd04169 RF3 RF3 subfamily

Probab=99.22  E-value=2.1e-11  Score=74.72  Aligned_cols=63  Identities=17%  Similarity=0.177  Sum_probs=47.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+++++|||+|+++|.......++.+|++|+|+|.++... ...+.+++....   .++|+++++|
T Consensus        69 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~-~~~~~i~~~~~~---~~~P~iivvN  131 (267)
T cd04169          69 RDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVE-PQTRKLFEVCRL---RGIPIITFIN  131 (267)
T ss_pred             CCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCcc-HHHHHHHHHHHh---cCCCEEEEEE
Confidence            46899999999999998877888999999999999987533 223344433322   3678888887

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.21  E-value=1.8e-11  Score=81.77  Aligned_cols=77  Identities=14%  Similarity=0.052  Sum_probs=54.2

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcc------hhhhcc--CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTI------TTAYYR--GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~------~~~~~~--~~~~~ilv~d~~~   54 (83)
                      +||||+++++....+.                  ...++++|||+|++++...      ...|+.  ++|+++.|+|.++
T Consensus         5 vGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~   84 (591)
T TIGR00437         5 VGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASN   84 (591)
T ss_pred             CCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCc
Confidence            7999999999766543                  2246789999999887653      344443  7899999999987


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.   ...+..++.   ..+.|+++|+|
T Consensus        85 ler---~l~l~~ql~---~~~~PiIIVlN  107 (591)
T TIGR00437        85 LER---NLYLTLQLL---ELGIPMILALN  107 (591)
T ss_pred             chh---hHHHHHHHH---hcCCCEEEEEe
Confidence            432   223333332   24789999998

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.

>KOG0077|consensus

Probab=99.21  E-value=2.8e-11  Score=69.16  Aligned_cols=83  Identities=17%  Similarity=0.249  Sum_probs=71.7

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||+++..+..+...               ..++++-+|.+|+..-+..|..|+-.++++++.+|.-+++.|.+.+.-+
T Consensus        31 AGKTTLLHMLKdDrl~qhvPTlHPTSE~l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~el  110 (193)
T KOG0077|consen   31 AGKTTLLHMLKDDRLGQHVPTLHPTSEELSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKEL  110 (193)
T ss_pred             CchhhHHHHHccccccccCCCcCCChHHheecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHH
Confidence            6999999998876655               6789999999999999999999999999999999999999999988766


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      +.+.... -..+|+++.||
T Consensus       111 d~ll~~e~la~vp~lilgn  129 (193)
T KOG0077|consen  111 DALLSDESLATVPFLILGN  129 (193)
T ss_pred             HHHHhHHHHhcCcceeecc
Confidence            6664422 26899999887

>TIGR00436 era GTP-binding protein Era

Probab=99.21  E-value=3.2e-11  Score=73.80  Aligned_cols=78  Identities=15%  Similarity=0.092  Sum_probs=55.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh-h-------cchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF-R-------TITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~-~-------~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||++++....+.                   ....+.+|||+|.... .       .....+++++|++++|+|.+
T Consensus        11 vGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~   90 (270)
T TIGR00436        11 VGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSD   90 (270)
T ss_pred             CCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECC
Confidence            6999999998876432                   2246789999997432 1       12345678999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+.+  +.+.+.+..   .+.|+++|+|
T Consensus        91 ~~~~~~--~~i~~~l~~---~~~p~ilV~N  115 (270)
T TIGR00436        91 QWNGDG--EFVLTKLQN---LKRPVVLTRN  115 (270)
T ss_pred             CCCchH--HHHHHHHHh---cCCCEEEEEE
Confidence            887765  444444433   3688899887

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.20  E-value=3.1e-11  Score=77.67  Aligned_cols=79  Identities=19%  Similarity=0.114  Sum_probs=55.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcc----------h-hhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTI----------T-TAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~----------~-~~~~~~~~~~ilv~   50 (83)
                      +||||++.++......                   ....+.+|||+|..++...          + ..+++.+|++++|+
T Consensus       183 ~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~  262 (429)
T TIGR03594       183 VGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVL  262 (429)
T ss_pred             CCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEE
Confidence            6999999998754321                   2236889999997544322          2 34788999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+.+..+ +...+.+   ...|+++|+|
T Consensus       263 D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~N  291 (429)
T TIGR03594       263 DATEGITEQDLR-IAGLILE---AGKALVIVVN  291 (429)
T ss_pred             ECCCCccHHHHH-HHHHHHH---cCCcEEEEEE
Confidence            999988877654 3333322   4688999987

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.19  E-value=3.7e-11  Score=80.31  Aligned_cols=63  Identities=17%  Similarity=0.253  Sum_probs=50.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+++++|||+|+++|......+++.+|++++|+|.++. .....+.|+..+.+   .++|.++|.|
T Consensus        62 ~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~---~~ip~IVviN  124 (594)
T TIGR01394        62 NGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVIN  124 (594)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHH---CCCCEEEEEE
Confidence            457899999999999999999999999999999999763 34455666666654   3577788876

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.

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

Probab=99.18  E-value=2.4e-11  Score=78.38  Aligned_cols=65  Identities=11%  Similarity=0.032  Sum_probs=46.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHH--HHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIR--NIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~--~~~~~~~~~~piilvgN   83 (83)
                      ..+.+.+|||+|+++|.......++.+|++++|+|.++.+++... .+.+  .+.+.. ...|+++++|
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~-~t~~~~~~~~~~-~~~~iIVviN  149 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQP-QTREHAFLARTL-GINQLIVAIN  149 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCC-chHHHHHHHHHc-CCCeEEEEEE
Confidence            457899999999999877666678999999999999998754222 2211  222223 2457888887

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.

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

Probab=99.18  E-value=3.9e-11  Score=64.94  Aligned_cols=75  Identities=13%  Similarity=0.137  Sum_probs=60.0

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEE
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKML   80 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piil   80 (83)
                      +|||+++.++..+.|.....+   -|.|   +......+++.++++++||+.++++|++.+  |.+.+....+.++|.++
T Consensus        11 vGKt~l~~~~~~~~~~~~~~~---~t~~---~~~~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~   82 (124)
T smart00010       11 VGKVGKSARFVQFPFDYVPTV---FTIG---IDVYDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILV   82 (124)
T ss_pred             hhHHHHHHHHhcCCccccCce---ehhh---hhhccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEE
Confidence            599999999988887654432   1222   666678889999999999999999999877  88888765557899999


Q ss_pred             EeC
Q psy16649         81 LGN   83 (83)
Q Consensus        81 vgN   83 (83)
                      +||
T Consensus        83 ~~n   85 (124)
T smart00010       83 GGN   85 (124)
T ss_pred             Eee
Confidence            886

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.17  E-value=6.6e-11  Score=78.95  Aligned_cols=76  Identities=13%  Similarity=0.240  Sum_probs=57.2

Q ss_pred             CCcceeeeeecc---Cccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hh
Q psy16649          1 SGENLCTLQIFR---GCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EK   56 (83)
Q Consensus         1 ~GKss~~~~~~~---~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~   56 (83)
                      +|||||+.++..   +.+.                  ....+.+||++|+++|......++.++|++++|+|.++   ++
T Consensus        11 ~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~q   90 (581)
T TIGR00475        11 HGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQ   90 (581)
T ss_pred             CCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHH
Confidence            699999999873   2221                  12678999999999999888889999999999999998   56


Q ss_pred             HHHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         57 SFDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        57 s~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      +++.+..    +..   .++| +++|+|
T Consensus        91 T~ehl~i----l~~---lgi~~iIVVlN  111 (581)
T TIGR00475        91 TGEHLAV----LDL---LGIPHTIVVIT  111 (581)
T ss_pred             HHHHHHH----HHH---cCCCeEEEEEE
Confidence            6655431    221   2455 778776

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.

>cd00880 Era_like Era (E

Probab=99.17  E-value=4.2e-11  Score=66.39  Aligned_cols=79  Identities=14%  Similarity=0.069  Sum_probs=57.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcc-------hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTI-------TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~-------~~~~~~~~~~~ilv~d~~   53 (83)
                      |||||++.++......                    ....+.+||++|...+...       ...+++.+|++++++|.+
T Consensus         7 sGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~   86 (163)
T cd00880           7 AGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDAD   86 (163)
T ss_pred             CCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCC
Confidence            7999999987765332                    1347899999998766433       345889999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+..... |.....   ....|+++|.|
T Consensus        87 ~~~~~~~~~-~~~~~~---~~~~~~ivv~n  112 (163)
T cd00880          87 LRADEEEEK-LLELLR---ERGKPVLLVLN  112 (163)
T ss_pred             CCCCHHHHH-HHHHHH---hcCCeEEEEEE
Confidence            988877665 333322   25788888876

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

>PRK10218 GTP-binding protein; Provisional

Probab=99.17  E-value=6.4e-11  Score=79.30  Aligned_cols=63  Identities=16%  Similarity=0.183  Sum_probs=46.5

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+++++|||+|+++|...+..+++.+|++|+|+|.++....+ .+.++..+..   .++|.+++.|
T Consensus        66 ~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~q-t~~~l~~a~~---~gip~IVviN  128 (607)
T PRK10218         66 NDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQ-TRFVTKKAFA---YGLKPIVVIN  128 (607)
T ss_pred             CCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHH-HHHHHHHHHH---cCCCEEEEEE
Confidence            3578999999999999999999999999999999998753322 2333333332   3566677765

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.16  E-value=6.8e-11  Score=80.38  Aligned_cols=78  Identities=17%  Similarity=0.112  Sum_probs=56.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--------hhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--------FRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--------~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++......                   ....+.+|||+|.+.        +......+++.+|++++|+|.+
T Consensus       286 vGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~  365 (712)
T PRK09518        286 VGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQ  365 (712)
T ss_pred             CCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            6999999999765421                   235789999999763        3445567889999999999997


Q ss_pred             ChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.  +.... .|.+.++.   .+.|+++|+|
T Consensus       366 ~~--~~~~d~~i~~~Lr~---~~~pvIlV~N  391 (712)
T PRK09518        366 VG--LTSTDERIVRMLRR---AGKPVVLAVN  391 (712)
T ss_pred             CC--CCHHHHHHHHHHHh---cCCCEEEEEE
Confidence            63  22232 45555543   5789999987

>PRK13351 elongation factor G; Reviewed

Probab=99.16  E-value=8e-11  Score=79.74  Aligned_cols=63  Identities=21%  Similarity=0.307  Sum_probs=51.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++++|||+|+.+|...+..+++.+|++++|+|.++..+.+....|. .+..   .++|+++++|
T Consensus        71 ~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~-~~~~---~~~p~iiviN  133 (687)
T PRK13351         71 DNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWR-QADR---YGIPRLIFIN  133 (687)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHh---cCCCEEEEEE
Confidence            4678999999999999999999999999999999999887777655553 3332   3688888887

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.15  E-value=8e-11  Score=80.05  Aligned_cols=79  Identities=18%  Similarity=0.134  Sum_probs=57.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCc----------hhhhcch-hhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQ----------ERFRTIT-TAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~----------~~~~~~~-~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++......                   ....+.+|||+|.          +.|..++ ...++.+|++++|+
T Consensus       461 vGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilVi  540 (712)
T PRK09518        461 VGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLF  540 (712)
T ss_pred             CCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEE
Confidence            6999999998876531                   2235679999995          3344333 34578999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+++.++-| ..+.+   .+.|+++|+|
T Consensus       541 Dat~~~s~~~~~i~-~~~~~---~~~piIiV~N  569 (712)
T PRK09518        541 DASQPISEQDLKVM-SMAVD---AGRALVLVFN  569 (712)
T ss_pred             ECCCCCCHHHHHHH-HHHHH---cCCCEEEEEE
Confidence            99999888887643 33332   4689999987

>cd01889 SelB_euk SelB subfamily

Probab=99.15  E-value=8.6e-11  Score=68.49  Aligned_cols=62  Identities=18%  Similarity=0.123  Sum_probs=41.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+.+|||+|+..+........+.+|++++|+|.++..+.+..+.|.  +....  ..|+++++|
T Consensus        67 ~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~~--~~~~iiv~N  128 (192)
T cd01889          67 NLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEIL--CKKLIVVLN  128 (192)
T ss_pred             CceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHHc--CCCEEEEEE
Confidence            578899999999765433334456789999999998855444433332  12222  468888876

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.13  E-value=1.3e-10  Score=74.77  Aligned_cols=79  Identities=14%  Similarity=0.074  Sum_probs=55.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCc--------hhhhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQ--------ERFRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~--------~~~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||..++..+...                   ....+.+|||+|.        +.+......+++.+|++++|+|.+
T Consensus        10 vGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~   89 (429)
T TIGR03594        10 VGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGR   89 (429)
T ss_pred             CCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCC
Confidence            6999999998765421                   2346899999995        455666777899999999999998


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+.... .+.+.+++   .+.|+++|+|
T Consensus        90 ~~~~~~d~-~i~~~l~~---~~~piilVvN  115 (429)
T TIGR03594        90 EGLTPEDE-EIAKWLRK---SGKPVILVAN  115 (429)
T ss_pred             CCCCHHHH-HHHHHHHH---hCCCEEEEEE
Confidence            75443321 22222332   3578999887

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.13  E-value=3.7e-11  Score=68.39  Aligned_cols=75  Identities=11%  Similarity=0.149  Sum_probs=49.6

Q ss_pred             CCcceeeeeeccCccc-----eEEEE---EEEeCCCc-----hhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-----HNFHI---NYRDTAGQ-----ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRN   67 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----~~~~l---~i~Dt~g~-----~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~   67 (83)
                      +||||++.++. +.+.     ..+.+   .+|||+|+     +.++.+. ..++++|++++|+|.++.+++.  ..|+.+
T Consensus        12 ~GKstl~~~l~-~~~~~~~~~~~v~~~~~~~iDtpG~~~~~~~~~~~~~-~~~~~ad~il~v~d~~~~~s~~--~~~~~~   87 (158)
T PRK15467         12 AGKTTLFNALQ-GNYTLARKTQAVEFNDKGDIDTPGEYFSHPRWYHALI-TTLQDVDMLIYVHGANDPESRL--PAGLLD   87 (158)
T ss_pred             CCHHHHHHHHc-CCCccCccceEEEECCCCcccCCccccCCHHHHHHHH-HHHhcCCEEEEEEeCCCccccc--CHHHHh
Confidence            69999999855 4332     11111   26999997     3333333 3478999999999999998763  345444


Q ss_pred             HHHhcCCCceEEEEeC
Q psy16649         68 IEENASANVEKMLLGN   83 (83)
Q Consensus        68 ~~~~~~~~~piilvgN   83 (83)
                      +    ....|+++++|
T Consensus        88 ~----~~~~~ii~v~n   99 (158)
T PRK15467         88 I----GVSKRQIAVIS   99 (158)
T ss_pred             c----cCCCCeEEEEE
Confidence            3    13567888876

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.12  E-value=5.3e-10  Score=64.70  Aligned_cols=64  Identities=22%  Similarity=0.349  Sum_probs=53.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ....+.++||+||+||..+|..+.+++.+.|++.|.+....| .....++.+....  .+|+++..|
T Consensus        66 ~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~N  129 (187)
T COG2229          66 EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAIN  129 (187)
T ss_pred             CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEee
Confidence            457899999999999999999999999999999999999999 4455555554433  389888876

>cd01895 EngA2 EngA2 subfamily

Probab=99.11  E-value=2.6e-10  Score=64.47  Aligned_cols=79  Identities=19%  Similarity=0.122  Sum_probs=53.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh----------hcc-hhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF----------RTI-TTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~----------~~~-~~~~~~~~~~~ilv~   50 (83)
                      +||||++.++....+.                   ....+.+|||+|..+.          ... ....++++|++++|+
T Consensus        13 ~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~   92 (174)
T cd01895          13 VGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVI   92 (174)
T ss_pred             CCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEE
Confidence            6999999998665421                   2245789999996432          111 123567999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.+++.+..... +...+..   .+.|+++++|
T Consensus        93 d~~~~~~~~~~~-~~~~~~~---~~~~~iiv~n  121 (174)
T cd01895          93 DATEGITEQDLR-IAGLILE---EGKALVIVVN  121 (174)
T ss_pred             eCCCCcchhHHH-HHHHHHh---cCCCEEEEEe
Confidence            999988866543 3333322   3578888876

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.

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.10  E-value=1.3e-10  Score=69.95  Aligned_cols=79  Identities=16%  Similarity=0.308  Sum_probs=53.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhc-----chhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRT-----ITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~-----~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      |||||+...+..+.-+                    ..+.+++||.+||..+..     .....++++.++|+|+|+.+.
T Consensus        10 SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~   89 (232)
T PF04670_consen   10 SGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSD   89 (232)
T ss_dssp             SSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-S
T ss_pred             CChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccc
Confidence            7999988877766544                    456899999999976533     467889999999999999966


Q ss_pred             hHHHHH---HHHHHHHHHhcCCCceEEE
Q psy16649         56 KSFDNI---KNWIRNIEENASANVEKML   80 (83)
Q Consensus        56 ~s~~~~---~~w~~~~~~~~~~~~piil   80 (83)
                      +-.+++   ...++.+.+.. |++.+-+
T Consensus        90 ~~~~~l~~~~~~i~~l~~~s-p~~~v~v  116 (232)
T PF04670_consen   90 DYDEDLAYLSDCIEALRQYS-PNIKVFV  116 (232)
T ss_dssp             TCHHHHHHHHHHHHHHHHHS-TT-EEEE
T ss_pred             cHHHHHHHHHHHHHHHHHhC-CCCeEEE
Confidence            544444   44555555555 5655544

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.10  E-value=3.4e-10  Score=67.78  Aligned_cols=62  Identities=23%  Similarity=0.241  Sum_probs=48.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|......+++.+|++++|+|+++..+.+....|. ...   ...+|+++++|
T Consensus        72 ~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~-~~~---~~~~p~ilviN  133 (222)
T cd01885          72 EYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLR-QAL---KERVKPVLVIN  133 (222)
T ss_pred             ceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHH-HHH---HcCCCEEEEEE
Confidence            688999999999999999999999999999999999876655432222 222   23578888887

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

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

Probab=99.07  E-value=2.8e-10  Score=65.68  Aligned_cols=79  Identities=14%  Similarity=0.230  Sum_probs=52.9

Q ss_pred             CCcceeeeeeccCccc-------------eEE----EEEEEeCCCc----------hhhhcchhhhccC---CcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------HNF----HINYRDTAGQ----------ERFRTITTAYYRG---AMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~~~----~l~i~Dt~g~----------~~~~~~~~~~~~~---~~~~ilv~   50 (83)
                      +||||++.++....+.             ..+    .+.+|||+|.          +.+..+...|++.   ++++++|+
T Consensus        29 ~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vv  108 (179)
T TIGR03598        29 VGKSSLINALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLM  108 (179)
T ss_pred             CCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCCcEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEe
Confidence            6999999998766421             111    3689999994          3455555667764   57999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.+++-+....+ +...+..   ...|+++++|
T Consensus       109 d~~~~~~~~~~~-~~~~~~~---~~~pviiv~n  137 (179)
T TIGR03598       109 DIRHPLKELDLE-MLEWLRE---RGIPVLIVLT  137 (179)
T ss_pred             cCCCCCCHHHHH-HHHHHHH---cCCCEEEEEE
Confidence            998865555543 2233322   3678888876

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.

>cd04163 Era Era subfamily

Probab=99.03  E-value=5.3e-10  Score=62.63  Aligned_cols=78  Identities=12%  Similarity=0.126  Sum_probs=51.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhh--------cchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFR--------TITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~--------~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++......                   ..+.+.+|||+|.....        .....++..+|++++|+|.+
T Consensus        14 ~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~   93 (168)
T cd04163          14 VGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDAS   93 (168)
T ss_pred             CCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            7999999887654321                   23578899999965432        23455688999999999999


Q ss_pred             ChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..  .... .+.+.+.+.   ..|+++|+|
T Consensus        94 ~~~--~~~~~~~~~~~~~~---~~~~iiv~n  119 (168)
T cd04163          94 EPI--GEGDEFILELLKKS---KTPVILVLN  119 (168)
T ss_pred             Ccc--CchHHHHHHHHHHh---CCCEEEEEE
Confidence            872  2222 233333322   577788776

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.03  E-value=4.9e-10  Score=74.13  Aligned_cols=63  Identities=17%  Similarity=0.180  Sum_probs=47.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+++++|||+|+++|......+++.+|++|+|+|.++.-. ...+.+++..+.   .++|++++.|
T Consensus        77 ~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~iPiiv~iN  139 (526)
T PRK00741         77 RDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVE-PQTRKLMEVCRL---RDTPIFTFIN  139 (526)
T ss_pred             CCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCC-HHHHHHHHHHHh---cCCCEEEEEE
Confidence            35789999999999998877888999999999999987532 123344433322   4688888887

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.02  E-value=6.6e-10  Score=73.00  Aligned_cols=83  Identities=11%  Similarity=0.099  Sum_probs=57.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCch----hhhcch---hhhccCCcEEEEEEECCC-
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQE----RFRTIT---TAYYRGAMGIMLVYDITN-   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~----~~~~~~---~~~~~~~~~~ilv~d~~~-   54 (83)
                      +|||||+.++......                  ....+.+||++|.-    ....+.   -.++..++++++|+|+++ 
T Consensus       170 AGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~  249 (500)
T PRK12296        170 AGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATL  249 (500)
T ss_pred             CCHHHHHHHHhcCCccccccCcccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCccc
Confidence            7999999998643211                  33578999999952    112222   224567999999999986 


Q ss_pred             ---hhHHHHHHHHHHHHHHhcC-----------CCceEEEEeC
Q psy16649         55 ---EKSFDNIKNWIRNIEENAS-----------ANVEKMLLGN   83 (83)
Q Consensus        55 ---~~s~~~~~~w~~~~~~~~~-----------~~~piilvgN   83 (83)
                         ++.++++..|.+++..+..           ...|+++|+|
T Consensus       250 e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlN  292 (500)
T PRK12296        250 EPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLN  292 (500)
T ss_pred             ccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEE
Confidence               3467777777777765432           3678999987

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.02  E-value=1.1e-10  Score=67.99  Aligned_cols=83  Identities=20%  Similarity=0.366  Sum_probs=56.4

Q ss_pred             CCcceeeeeeccCccc-----------------eEEEEEEEeCCCchhhhcc-hhh--hccCCcEEEEEEECCC-hhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-----------------HNFHINYRDTAGQERFRTI-TTA--YYRGAMGIMLVYDITN-EKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------------~~~~l~i~Dt~g~~~~~~~-~~~--~~~~~~~~ilv~d~~~-~~s~~   59 (83)
                      ||||+|..++..+.+.                 ..-.+.+.|++|+++.+.. ...  +...+.++|+|.|.+. +..+.
T Consensus        14 SGKTaLf~~L~~~~~~~T~tS~e~n~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~   93 (181)
T PF09439_consen   14 SGKTALFSQLVNGKTVPTVTSMENNIAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELR   93 (181)
T ss_dssp             SSHHHHHHHHHHSS---B---SSEEEECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHH
T ss_pred             CCHHHHHHHHhcCCcCCeeccccCCceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHH
Confidence            7999999999888764                 2236789999999998763 333  5889999999999874 44556


Q ss_pred             HHHHHHHHH-HHh--cCCCceEEEEeC
Q psy16649         60 NIKNWIRNI-EEN--ASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~-~~~--~~~~~piilvgN   83 (83)
                      ++-+.+-.+ ...  ....+|++|+.|
T Consensus        94 ~~Ae~Ly~iL~~~~~~~~~~piLIacN  120 (181)
T PF09439_consen   94 DVAEYLYDILSDTEVQKNKPPILIACN  120 (181)
T ss_dssp             HHHHHHHHHHHHHHCCTT--EEEEEEE
T ss_pred             HHHHHHHHHHHhhhhccCCCCEEEEEe
Confidence            555444344 332  246899999887

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.00  E-value=5.1e-10  Score=72.28  Aligned_cols=65  Identities=11%  Similarity=0.040  Sum_probs=42.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+++.+|||+|+++|.......++.+|++++|+|.+++.++... ..++..+. .. ...|+++++|
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~-~~-~~~~iivviN  147 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLAR-TL-GINQLIVAIN  147 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHH-Hc-CCCeEEEEEE
Confidence            467899999999998866555557899999999999874222222 22222222 22 2346777776

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.00  E-value=9.1e-10  Score=63.97  Aligned_cols=79  Identities=14%  Similarity=0.210  Sum_probs=52.0

Q ss_pred             CCcceeeeeeccCccc-----------------eEEEEEEEeCCC----------chhhhcchhhhccCC---cEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-----------------HNFHINYRDTAG----------QERFRTITTAYYRGA---MGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------------~~~~l~i~Dt~g----------~~~~~~~~~~~~~~~---~~~ilv~   50 (83)
                      +||||++.++..+.+.                 ....+.+|||+|          ++++..+...|++.+   +++++++
T Consensus        35 ~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~  114 (196)
T PRK00454         35 VGKSSLINALTNRKNLARTSKTPGRTQLINFFEVNDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLI  114 (196)
T ss_pred             CCHHHHHHHHhCCCCcccccCCCCceeEEEEEecCCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEE
Confidence            6999999999876532                 124688999999          456666777777765   5677888


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.+++.+.... .+.+.+. .  ...|+++++|
T Consensus       115 d~~~~~~~~~~-~i~~~l~-~--~~~~~iiv~n  143 (196)
T PRK00454        115 DSRHPLKELDL-QMIEWLK-E--YGIPVLIVLT  143 (196)
T ss_pred             ecCCCCCHHHH-HHHHHHH-H--cCCcEEEEEE
Confidence            88776544331 1112222 1  3577787776

>cd00066 G-alpha G protein alpha subunit

Probab=98.98  E-value=5.2e-09  Score=65.57  Aligned_cols=67  Identities=19%  Similarity=0.241  Sum_probs=53.9

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE----------KSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~----------~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..+.+.+||++||...+..|..|+.+++++++|.|+++-          +.+++....++.+-... -.+.|++|++|
T Consensus       159 ~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~N  236 (317)
T cd00066         159 KNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLN  236 (317)
T ss_pred             cceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEcc
Confidence            568899999999999999999999999999999999974          45555555555554432 15799999987

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.97  E-value=1.5e-09  Score=69.64  Aligned_cols=83  Identities=13%  Similarity=0.107  Sum_probs=59.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhh----cc---hhhhccCCcEEEEEEECC-
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFR----TI---TTAYYRGAMGIMLVYDIT-   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~----~~---~~~~~~~~~~~ilv~d~~-   53 (83)
                      +|||||+.++......                   ....+.++||+|.-+-.    .+   .-..+..++++++|+|++ 
T Consensus       170 aGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~  249 (390)
T PRK12298        170 AGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAP  249 (390)
T ss_pred             CCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCc
Confidence            6999999998753221                   12358999999964211    01   123577899999999998 


Q ss_pred             --ChhHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         54 --NEKSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        54 --~~~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                        +++.++++..|.+++.....  .+.|+++|.|
T Consensus       250 ~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlN  283 (390)
T PRK12298        250 IDGSDPVENARIIINELEKYSPKLAEKPRWLVFN  283 (390)
T ss_pred             ccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEe
Confidence              56788888999988887542  3578888877

>TIGR00503 prfC peptide chain release factor 3

Probab=98.97  E-value=1.3e-09  Score=72.18  Aligned_cols=63  Identities=16%  Similarity=0.161  Sum_probs=47.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+++++|||+|+++|.......++.+|++|+|+|.++.- ....+.+++..+.   .++|+++++|
T Consensus        78 ~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv-~~~t~~l~~~~~~---~~~PiivviN  140 (527)
T TIGR00503        78 RDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGV-ETRTRKLMEVTRL---RDTPIFTFMN  140 (527)
T ss_pred             CCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCC-CHHHHHHHHHHHh---cCCCEEEEEE
Confidence            4678999999999999887777899999999999998731 1223444443332   4688888887

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.

>PRK00089 era GTPase Era; Reviewed

Probab=98.97  E-value=1.1e-09  Score=67.61  Aligned_cols=78  Identities=12%  Similarity=0.172  Sum_probs=51.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh--------hcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF--------RTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~--------~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++......                   ....+.+|||+|....        .......+..+|++++|+|.+
T Consensus        16 ~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~   95 (292)
T PRK00089         16 VGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDAD   95 (292)
T ss_pred             CCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCC
Confidence            7999999988654331                   2267899999996432        223345678999999999998


Q ss_pred             ChhHHHHHHHH-HHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNW-IRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w-~~~~~~~~~~~~piilvgN   83 (83)
                      +.  +.....+ .+.+.   ..+.|+++|+|
T Consensus        96 ~~--~~~~~~~i~~~l~---~~~~pvilVlN  121 (292)
T PRK00089         96 EK--IGPGDEFILEKLK---KVKTPVILVLN  121 (292)
T ss_pred             CC--CChhHHHHHHHHh---hcCCCEEEEEE
Confidence            82  2222222 22232   24688888887

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.96  E-value=1.7e-09  Score=66.16  Aligned_cols=63  Identities=25%  Similarity=0.314  Sum_probs=47.6

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++.+|||+|+.++.......++.+|++++|+|.++.........|. .+..   .++|.+++.|
T Consensus        62 ~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvN  124 (268)
T cd04170          62 KGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFIN  124 (268)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEE
Confidence            3468899999999998888888999999999999999876554444342 2322   3577887776

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.95  E-value=2e-09  Score=69.59  Aligned_cols=79  Identities=18%  Similarity=0.132  Sum_probs=53.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch----------hhhcch-hhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE----------RFRTIT-TAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~----------~~~~~~-~~~~~~~~~~ilv~   50 (83)
                      +||||++.++......                   ....+.+|||+|..          .|...+ ..+++.+|++++|+
T Consensus       184 ~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilVi  263 (435)
T PRK00093        184 VGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVI  263 (435)
T ss_pred             CCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEE
Confidence            6999999887644310                   23467899999953          333222 24778999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+.+..+ +...+.+   ...|+++|+|
T Consensus       264 D~~~~~~~~~~~-i~~~~~~---~~~~~ivv~N  292 (435)
T PRK00093        264 DATEGITEQDLR-IAGLALE---AGRALVIVVN  292 (435)
T ss_pred             eCCCCCCHHHHH-HHHHHHH---cCCcEEEEEE
Confidence            999987776653 3333332   3578888877

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=98.95  E-value=1.6e-09  Score=65.26  Aligned_cols=67  Identities=16%  Similarity=0.087  Sum_probs=47.1

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh-------cchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR-------TITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~-------~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ||||||+.++......                  ....+++||++|+.+..       .....+++++|++++|+|.+++
T Consensus        11 ~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~   90 (233)
T cd01896          11 VGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKP   90 (233)
T ss_pred             CCHHHHHHHHHCCCccccCCCCccccceEEEEEECCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcc
Confidence            7999999988764421                  34678999999975432       1234578999999999999886


Q ss_pred             h-HHHHHHHHHHH
Q psy16649         56 K-SFDNIKNWIRN   67 (83)
Q Consensus        56 ~-s~~~~~~w~~~   67 (83)
                      + ..+.+.+.++.
T Consensus        91 ~~~~~~~~~~l~~  103 (233)
T cd01896          91 EGHREILERELEG  103 (233)
T ss_pred             hhHHHHHHHHHHH
Confidence            6 44444444433

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.

>smart00275 G_alpha G protein alpha subunit

Probab=98.91  E-value=1.6e-08  Score=64.06  Aligned_cols=67  Identities=16%  Similarity=0.207  Sum_probs=53.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE----------KSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~----------~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..+++.+||.+||...+..|..|+.+++++|+|.|+++-          ..+++....++.+.... -.++|++|++|
T Consensus       182 ~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~N  259 (342)
T smart00275      182 KKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLN  259 (342)
T ss_pred             CCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEe
Confidence            457789999999999999999999999999999999973          45555555555554422 25799999987

Subunit of G proteins that contains the guanine nucleotide binding site

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.87  E-value=7.6e-09  Score=58.08  Aligned_cols=77  Identities=13%  Similarity=0.255  Sum_probs=50.1

Q ss_pred             CCcceeeeeeccCccce-----------------EEEEEEEeCCC----------chhhhcchhhhccC---CcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQH-----------------NFHINYRDTAG----------QERFRTITTAYYRG---AMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~-----------------~~~l~i~Dt~g----------~~~~~~~~~~~~~~---~~~~ilv~   50 (83)
                      +|||||+..+..+.+..                 .-.+.+|||+|          ++.+......|++.   .+++++++
T Consensus        10 ~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~   89 (170)
T cd01876          10 VGKSSLINALTNRKKLARTSKTPGKTQLINFFNVNDKFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLI   89 (170)
T ss_pred             CCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccCeEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEE
Confidence            79999999998544331                 11577899998          34455666666664   46788899


Q ss_pred             ECCChhH--HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKS--FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s--~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+  ...+.+|+...      ..|+++|+|
T Consensus        90 d~~~~~~~~~~~~~~~l~~~------~~~vi~v~n  118 (170)
T cd01876          90 DSRHGPTEIDLEMLDWLEEL------GIPFLVVLT  118 (170)
T ss_pred             EcCcCCCHhHHHHHHHHHHc------CCCEEEEEE
Confidence            9886632  23344554432      477777765

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.83  E-value=6.6e-09  Score=66.94  Aligned_cols=37  Identities=16%  Similarity=0.191  Sum_probs=33.1

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..+.+|||+|+++|...+......+|++++|+|.++.
T Consensus        80 ~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g  116 (406)
T TIGR03680        80 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEP  116 (406)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCC
Confidence            5789999999999988888888899999999999853

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

>PRK12740 elongation factor G; Reviewed

Probab=98.80  E-value=9.8e-09  Score=69.56  Aligned_cols=63  Identities=21%  Similarity=0.233  Sum_probs=49.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+.+|||+|+.++...+...++.+|++++++|.+...+.+....|. .+..   .++|+++|.|
T Consensus        58 ~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~-~~~~---~~~p~iiv~N  120 (668)
T PRK12740         58 KGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWR-QAEK---YGVPRIIFVN  120 (668)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHH-HHHH---cCCCEEEEEE
Confidence            4678999999999998888888999999999999999876665544443 2322   3578888876

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.80  E-value=1.1e-08  Score=62.15  Aligned_cols=51  Identities=20%  Similarity=0.283  Sum_probs=45.5

Q ss_pred             hhhhcchhhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         30 ERFRTITTAYYRGAMGIMLVYDITNEK-SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        30 ~~~~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |+|..+.+.+++++|++++|||+++++ ||+.+.+|+..+..   .++|++||+|
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~N   75 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLN   75 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEE
Confidence            788999999999999999999999887 89999999976643   5789999987

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

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.80  E-value=8.9e-09  Score=70.06  Aligned_cols=63  Identities=22%  Similarity=0.271  Sum_probs=48.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++.+|||+|+.++.......++.+|++++|+|.++....+...-| ..+++   .++|+++++|
T Consensus        73 ~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviN  135 (689)
T TIGR00484        73 KGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVN  135 (689)
T ss_pred             CCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEE
Confidence            357899999999999888888999999999999999886555443333 23332   3578888887

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.77  E-value=2.5e-08  Score=67.24  Aligned_cols=61  Identities=16%  Similarity=0.211  Sum_probs=46.2

Q ss_pred             CCcceeeeeecc---Cccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---h
Q psy16649          1 SGENLCTLQIFR---GCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---E   55 (83)
Q Consensus         1 ~GKss~~~~~~~---~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~   55 (83)
                      +|||||+.++..   +.+.                   ....+.+|||+|+++|.......+.++|++++|+|.++   +
T Consensus        11 hGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~   90 (614)
T PRK10512         11 HGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMA   90 (614)
T ss_pred             CCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcH
Confidence            599999998862   2221                   12457899999999997777777899999999999887   4


Q ss_pred             hHHHHH
Q psy16649         56 KSFDNI   61 (83)
Q Consensus        56 ~s~~~~   61 (83)
                      ++.+.+
T Consensus        91 qT~ehl   96 (614)
T PRK10512         91 QTREHL   96 (614)
T ss_pred             HHHHHH
Confidence            554444

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.77  E-value=9.5e-09  Score=70.22  Aligned_cols=62  Identities=23%  Similarity=0.177  Sum_probs=43.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+.+|||+|+.+|.......++.+|++++|+|..+.-.-+....|. .+.   ..+.|++++.|
T Consensus        85 ~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~-~~~---~~~~p~ivviN  146 (720)
T TIGR00490        85 EYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLR-QAL---KENVKPVLFIN  146 (720)
T ss_pred             ceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHH-HHH---HcCCCEEEEEE
Confidence            578999999999999888888999999999999987732222222222 121   13456677766

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.76  E-value=1.8e-08  Score=69.30  Aligned_cols=77  Identities=18%  Similarity=0.135  Sum_probs=53.8

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcc----------hhhhc--cCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTI----------TTAYY--RGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~----------~~~~~--~~~~~~ilv~   50 (83)
                      |||||+.+++......                  ...++++|||+|..++...          ...++  ..+|++++|+
T Consensus        14 vGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~Vv   93 (772)
T PRK09554         14 SGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVV   93 (772)
T ss_pred             CCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEe
Confidence            7999999998754321                  3457899999999876432          22343  4899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++.+.   ...|..++.+   .+.|++++.|
T Consensus        94 Dat~ler---~l~l~~ql~e---~giPvIvVlN  120 (772)
T PRK09554         94 DASNLER---NLYLTLQLLE---LGIPCIVALN  120 (772)
T ss_pred             cCCcchh---hHHHHHHHHH---cCCCEEEEEE
Confidence            9988654   2335555544   3588888877

>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=98.75  E-value=1.7e-08  Score=58.69  Aligned_cols=62  Identities=23%  Similarity=0.229  Sum_probs=43.6

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...+.+.||+|+++|......-.+.+|++|+|.|..+.-.-+. ...+..+..   .++|++++-|
T Consensus        69 ~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~---~~~p~ivvlN  130 (188)
T PF00009_consen   69 NRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQT-EEHLKILRE---LGIPIIVVLN  130 (188)
T ss_dssp             SEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHH-HHHHHHHHH---TT-SEEEEEE
T ss_pred             ccceeecccccccceeecccceecccccceeeeeccccccccc-ccccccccc---cccceEEeee
Confidence            4689999999999998888888999999999999986533222 222223322   3566666654

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 ....

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

Probab=98.74  E-value=2.7e-08  Score=61.15  Aligned_cols=63  Identities=22%  Similarity=0.254  Sum_probs=45.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++.++||+|+.++...+...++.+|++++|.|..+...-+ ....++.+..   .+.|++++.|
T Consensus        62 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviN  124 (270)
T cd01886          62 KDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVN  124 (270)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEE
Confidence            3478899999999999888899999999999999987642211 1233333332   3467777765

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.74  E-value=1.5e-08  Score=59.53  Aligned_cols=76  Identities=7%  Similarity=0.054  Sum_probs=48.6

Q ss_pred             CCcceeeeeeccCccc----------------eEE------EEEEEeCCCchhhhcch-----hhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNF------HINYRDTAGQERFRTIT-----TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~------~l~i~Dt~g~~~~~~~~-----~~~~~~~~~~ilv~d~~   53 (83)
                      +||||+++.+....+.                ..+      .+.+|||+|........     ...+.++|.++++-+  
T Consensus        12 ~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~--   89 (197)
T cd04104          12 AGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISS--   89 (197)
T ss_pred             CCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeC--
Confidence            6999999988663321                112      68899999975432222     233678898888732  


Q ss_pred             ChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                        ++|.+.+ .|++.+++.   ..|+++|+|
T Consensus        90 --~~~~~~d~~~~~~l~~~---~~~~ilV~n  115 (197)
T cd04104          90 --TRFSSNDVKLAKAIQCM---GKKFYFVRT  115 (197)
T ss_pred             --CCCCHHHHHHHHHHHHh---CCCEEEEEe
Confidence              3455554 566666654   467788876

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

>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=98.74  E-value=6.3e-08  Score=52.25  Aligned_cols=77  Identities=19%  Similarity=0.202  Sum_probs=48.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh----------hhcchhhhccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER----------FRTITTAYYRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~----------~~~~~~~~~~~~~~~ilv~d   51 (83)
                      +||||++..+......                   ....+.++||+|-..          +...... +..+|++++|+|
T Consensus        10 ~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~vv~   88 (116)
T PF01926_consen   10 VGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGESQDNDGKEIRKFLEQ-ISKSDLIIYVVD   88 (116)
T ss_dssp             SSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHHH-HCTESEEEEEEE
T ss_pred             CCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeEEEEeCCCCcccchhhHHHHHHHHHHHH-HHHCCEEEEEEE
Confidence            6999999998864321                   123567999999532          1123333 389999999999


Q ss_pred             CCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         52 ITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        52 ~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+++.. +...+.+++++    .+.|+++|-|
T Consensus        89 ~~~~~~-~~~~~~~~~l~----~~~~~i~v~N  115 (116)
T PF01926_consen   89 ASNPIT-EDDKNILRELK----NKKPIILVLN  115 (116)
T ss_dssp             TTSHSH-HHHHHHHHHHH----TTSEEEEEEE
T ss_pred             CCCCCC-HHHHHHHHHHh----cCCCEEEEEc
Confidence            877422 22333334442    5678888765

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 ....

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

Probab=98.70  E-value=7.1e-08  Score=56.89  Aligned_cols=59  Identities=14%  Similarity=0.176  Sum_probs=43.3

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh----hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE----KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~----~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++.+|||+|+++|..........+|++++|+|.+++    ++++.+..|    ...  ...|+++|.|
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~----~~~--~~~~iiivvN  145 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAAL----EIM--GLKHIIIVQN  145 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHH----HHc--CCCcEEEEEE
Confidence            6789999999999988777788889999999999873    444444333    111  2246777766

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

>KOG0090|consensus

Probab=98.70  E-value=2.2e-07  Score=55.37  Aligned_cols=83  Identities=18%  Similarity=0.279  Sum_probs=59.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhcc---CCcEEEEEEECCC-hhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYR---GAMGIMLVYDITN-EKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~---~~~~~ilv~d~~~-~~s~~~~   61 (83)
                      ||||++..++.++.+.               ..-...+.|.+|+++.+.-...|++   .+-++++|.|..- ..-...+
T Consensus        49 SGKT~LF~qL~~gs~~~TvtSiepn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdv  128 (238)
T KOG0090|consen   49 SGKTSLFTQLITGSHRGTVTSIEPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDV  128 (238)
T ss_pred             CCceeeeeehhcCCccCeeeeeccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHH
Confidence            7999999999999877               2334688999999999887777887   7899999987643 2333444


Q ss_pred             HH-HHHHHHHh--cCCCceEEEEeC
Q psy16649         62 KN-WIRNIEEN--ASANVEKMLLGN   83 (83)
Q Consensus        62 ~~-w~~~~~~~--~~~~~piilvgN   83 (83)
                      .. ++.-+...  ....+|+++.-|
T Consensus       129 aefLydil~~~~~~~~~~~vLIaCN  153 (238)
T KOG0090|consen  129 AEFLYDILLDSRVKKNKPPVLIACN  153 (238)
T ss_pred             HHHHHHHHHhhccccCCCCEEEEec
Confidence            44 34444333  246788887765

>cd01850 CDC_Septin CDC/Septin

Probab=98.67  E-value=2.6e-08  Score=61.42  Aligned_cols=28  Identities=18%  Similarity=0.269  Sum_probs=21.0

Q ss_pred             CCcceeeeeeccCccc------------------------------eEEEEEEEeCCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------------------HNFHINYRDTAG   28 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------------------~~~~l~i~Dt~g   28 (83)
                      +||||++.++....+.                              ..++|.+|||+|
T Consensus        15 ~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpG   72 (276)
T cd01850          15 LGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPG   72 (276)
T ss_pred             CCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCC
Confidence            6899998887555431                              336799999999

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.66  E-value=1e-07  Score=67.29  Aligned_cols=56  Identities=21%  Similarity=0.248  Sum_probs=46.2

Q ss_pred             EEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         21 INYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        21 l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|||+|++.|..++...++.+|++++|+|.++   +++++.++.+    +.   .++|+++|+|
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~l----k~---~~iPiIVViN  586 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINIL----RQ---YKTPFVVAAN  586 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHH----HH---cCCCEEEEEE
Confidence            8999999999999999889999999999999987   6777665532    22   2578999887

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.57  E-value=1.2e-07  Score=59.54  Aligned_cols=36  Identities=19%  Similarity=0.307  Sum_probs=29.6

Q ss_pred             EEEEEEeCCCc----hhhhcchhhh---ccCCcEEEEEEECCC
Q psy16649         19 FHINYRDTAGQ----ERFRTITTAY---YRGAMGIMLVYDITN   54 (83)
Q Consensus        19 ~~l~i~Dt~g~----~~~~~~~~~~---~~~~~~~ilv~d~~~   54 (83)
                      +.+++||++|.    +++..+...+   +++||++++|+|++.
T Consensus        69 v~i~l~D~aGlv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~  111 (318)
T cd01899          69 VPVELIDVAGLVPGAHEGKGLGNKFLDDLRDADALIHVVDASG  111 (318)
T ss_pred             ceEEEEECCCCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence            57899999997    5566665554   899999999999973

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.55  E-value=2.8e-07  Score=55.36  Aligned_cols=61  Identities=18%  Similarity=0.102  Sum_probs=38.7

Q ss_pred             EEEEEEeCCCchhhhcchhhhc--cCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYY--RGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~--~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+.||+|+++|......-+  +.+|++++|.|...... .....++..+..   .++|+++|-|
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvN  146 (224)
T cd04165          84 KLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVT  146 (224)
T ss_pred             cEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEE
Confidence            4688999999999865433333  36899999999876432 222334444433   2466666654

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

>KOG0705|consensus

Probab=98.55  E-value=1.1e-07  Score=63.26  Aligned_cols=78  Identities=15%  Similarity=0.391  Sum_probs=63.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||+++.+|..+.|.                  +...|-+.|.+|.     ....|-.++|++|+||.+.+.++|+.++
T Consensus        41 sgktalvhr~ltgty~~~e~~e~~~~kkE~vv~gqs~lLlirdeg~~-----~~aQft~wvdavIfvf~~~d~~s~q~v~  115 (749)
T KOG0705|consen   41 SGKTALVHRYLTGTYTQDESPEGGRFKKEVVVDGQSHLLLIRDEGGH-----PDAQFCQWVDAVVFVFSVEDEQSFQAVQ  115 (749)
T ss_pred             CCceeeeeeeccceeccccCCcCccceeeEEeeccceEeeeecccCC-----chhhhhhhccceEEEEEeccccCHHHHH
Confidence            6999999999999987                  5567778888774     2467778899999999999999999999


Q ss_pred             HHHHHHHHhc-CCCceEEEEeC
Q psy16649         63 NWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .....+..+. ...+|++++|.
T Consensus       116 ~l~~~l~~~r~r~~i~l~lvgt  137 (749)
T KOG0705|consen  116 ALAHEMSSYRNISDLPLILVGT  137 (749)
T ss_pred             HHHhhcccccccccchHHhhcC
Confidence            8877765443 25677777763

>KOG3886|consensus

Probab=98.52  E-value=3.1e-07  Score=55.57  Aligned_cols=62  Identities=18%  Similarity=0.386  Sum_probs=44.6

Q ss_pred             eEEEEEEEeCCCchhh-----hcchhhhccCCcEEEEEEECCChhHHHHHHHHHH---HHHHhcCCCceEE
Q psy16649         17 HNFHINYRDTAGQERF-----RTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIR---NIEENASANVEKM   79 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~-----~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~---~~~~~~~~~~pii   79 (83)
                      .+.-|.+||.+|||.+     .......+++.++.+.+||++.++--.++....+   .+.+++ |...+.
T Consensus        51 Gnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~S-P~AkiF  120 (295)
T KOG3886|consen   51 GNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQNS-PEAKIF  120 (295)
T ss_pred             hhheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhcC-CcceEE
Confidence            6688999999999865     2355678899999999999999876666655444   444444 444443

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.50  E-value=8.4e-07  Score=52.51  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=32.5

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..++.+|||+|+++|.......++.+|++++|+|.++.
T Consensus        76 ~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~  113 (208)
T cd04166          76 KRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKG  113 (208)
T ss_pred             CceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCC
Confidence            34788999999999876666778999999999999875

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=98.44  E-value=1e-06  Score=52.51  Aligned_cols=39  Identities=18%  Similarity=0.175  Sum_probs=33.6

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...++.+|||+|+.+|........+.+|++++|.|.++.
T Consensus        75 ~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~  113 (219)
T cd01883          75 EKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKG  113 (219)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCC
Confidence            567899999999988876666677889999999999984

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

>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=98.32  E-value=7.7e-07  Score=50.86  Aligned_cols=77  Identities=14%  Similarity=0.116  Sum_probs=47.6

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhh------hcchhhhc--cCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERF------RTITTAYY--RGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~------~~~~~~~~--~~~~~~ilv~d~~~   54 (83)
                      +||||+.+++......                  ....+.+.|++|....      ..+...++  .+.|+++.|.|.++
T Consensus        11 vGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~   90 (156)
T PF02421_consen   11 VGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATN   90 (156)
T ss_dssp             SSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGG
T ss_pred             CCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCC
Confidence            6999999887765533                  2357889999995332      22334444  58999999999987


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.   -.....++.+   -..|++++.|
T Consensus        91 l~r---~l~l~~ql~e---~g~P~vvvlN  113 (156)
T PF02421_consen   91 LER---NLYLTLQLLE---LGIPVVVVLN  113 (156)
T ss_dssp             HHH---HHHHHHHHHH---TTSSEEEEEE
T ss_pred             HHH---HHHHHHHHHH---cCCCEEEEEe
Confidence            542   2233334443   3588888866

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 ....

>PRK12739 elongation factor G; Reviewed

Probab=98.32  E-value=1.1e-06  Score=60.03  Aligned_cols=63  Identities=21%  Similarity=0.240  Sum_probs=45.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++.++||+|+.+|.......++.+|++++|.|.++.-.-+.. ..+..+.+   .+.|++++.|
T Consensus        71 ~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iN  133 (691)
T PRK12739         71 KGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVN  133 (691)
T ss_pred             CCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEE
Confidence            356889999999998888888899999999999998875332222 22223322   3467777765

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.25  E-value=3.1e-06  Score=49.89  Aligned_cols=38  Identities=21%  Similarity=0.173  Sum_probs=31.8

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.+.||+|+.+|......-+..+|++++|.|.+..
T Consensus        64 ~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g  101 (195)
T cd01884          64 NRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDG  101 (195)
T ss_pred             CeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCC
Confidence            45678999999998877667777899999999998764

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.

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

Probab=98.25  E-value=6.3e-06  Score=53.47  Aligned_cols=59  Identities=12%  Similarity=0.158  Sum_probs=38.8

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|+++|......-...+|++++|+|.++    .++.+.+..+    .. . ...|+++|+|
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l----~~-~-~i~~iiVVlN  147 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMAL----DI-I-GIKNIVIVQN  147 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHH----HH-c-CCCcEEEEEE
Confidence            578999999999886544444456799999999995    3444443322    21 1 1235677765

>PLN03126 Elongation factor Tu; Provisional

Probab=98.20  E-value=3.4e-06  Score=55.70  Aligned_cols=38  Identities=18%  Similarity=0.127  Sum_probs=31.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..++.++|++|+++|......-...+|++++|.|.++-
T Consensus       143 ~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G  180 (478)
T PLN03126        143 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADG  180 (478)
T ss_pred             CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            45788999999999976666667789999999998754

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.20  E-value=1.7e-05  Score=51.21  Aligned_cols=37  Identities=22%  Similarity=0.188  Sum_probs=30.5

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ..++.+|||+|+++|......-...+|++++|+|.++
T Consensus        74 ~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~  110 (394)
T TIGR00485        74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATD  110 (394)
T ss_pred             CEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCC
Confidence            4578999999999986555555667899999999987

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=98.14  E-value=7.5e-06  Score=53.37  Aligned_cols=77  Identities=16%  Similarity=0.068  Sum_probs=51.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhh---------cchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFR---------TITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~---------~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||.+|+.....-                   ....+.+.||+|-+...         .....-+..||++|+|.|.
T Consensus        14 VGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~   93 (444)
T COG1160          14 VGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDG   93 (444)
T ss_pred             CcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeC
Confidence            5999999998775543                   55679999999976322         2234456689999999998


Q ss_pred             CChhH-HH-HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKS-FD-NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s-~~-~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..--+ -+ .+-+|   ++   ..+.|++||.|
T Consensus        94 ~~Git~~D~~ia~~---Lr---~~~kpviLvvN  120 (444)
T COG1160          94 REGITPADEEIAKI---LR---RSKKPVILVVN  120 (444)
T ss_pred             CCCCCHHHHHHHHH---HH---hcCCCEEEEEE
Confidence            76322 11 12233   22   24688999887

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.13  E-value=7.4e-06  Score=52.99  Aligned_cols=35  Identities=23%  Similarity=0.331  Sum_probs=28.0

Q ss_pred             EEEEEEeCCCc----hhhhcchhhh---ccCCcEEEEEEECC
Q psy16649         19 FHINYRDTAGQ----ERFRTITTAY---YRGAMGIMLVYDIT   53 (83)
Q Consensus        19 ~~l~i~Dt~g~----~~~~~~~~~~---~~~~~~~ilv~d~~   53 (83)
                      +.+++||++|.    ++...+...+   ++++|++++|+|..
T Consensus        72 ~~i~i~D~aGl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         72 IPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             eeEEEEEcCCcCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            55889999993    4455566666   88999999999997

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.09  E-value=5.1e-06  Score=54.45  Aligned_cols=42  Identities=19%  Similarity=0.212  Sum_probs=36.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      ....+.+.|++|+++|.......++.+|++|+|+|.++ .+|+
T Consensus        83 ~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e  124 (447)
T PLN00043         83 TKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFE  124 (447)
T ss_pred             CCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-Ccee
Confidence            45688999999999998888888999999999999986 4454

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.08  E-value=1.2e-05  Score=53.19  Aligned_cols=58  Identities=21%  Similarity=0.231  Sum_probs=47.2

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      -.|.+.||+|++-|..|+..=..=+|.++||.++++   +++.++++.       ...-++|+++..|
T Consensus        55 ~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~h-------ak~a~vP~iVAiN  115 (509)
T COG0532          55 PGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINH-------AKAAGVPIVVAIN  115 (509)
T ss_pred             ceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHH-------HHHCCCCEEEEEe
Confidence            478899999999999999999999999999999987   566555433       2225799998876

>KOG0468|consensus

Probab=98.07  E-value=9.3e-06  Score=55.49  Aligned_cols=63  Identities=24%  Similarity=0.358  Sum_probs=48.9

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+++.||+|+-+|..-...-++-+|++++++|+..--+++- ++.++..   ...+.|+++|-|
T Consensus       195 KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikha---iq~~~~i~vviN  257 (971)
T KOG0468|consen  195 KSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHA---IQNRLPIVVVIN  257 (971)
T ss_pred             ceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHH---HhccCcEEEEEe
Confidence            78899999999999998888888999999999999987665543 2322222   235788888766

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.06  E-value=5e-06  Score=51.37  Aligned_cols=65  Identities=12%  Similarity=0.127  Sum_probs=47.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh-------hhcchhhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER-------FRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~-------~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      +||||+++.+..+...                   ..-.+.+||++|-++       |+.....++...|-+++..+..|
T Consensus        50 ~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~d  129 (296)
T COG3596          50 AGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADD  129 (296)
T ss_pred             CcHHHHHHHHHhccCceeeecccCCCchhhHHhhccccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCC
Confidence            6999999998854332                   224788999999766       67777888899998888888888


Q ss_pred             hhHHHHHHHHH
Q psy16649         55 EKSFDNIKNWI   65 (83)
Q Consensus        55 ~~s~~~~~~w~   65 (83)
                      +.---....|.
T Consensus       130 raL~~d~~f~~  140 (296)
T COG3596         130 RALGTDEDFLR  140 (296)
T ss_pred             ccccCCHHHHH
Confidence            75433333333

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.06  E-value=8.9e-06  Score=56.87  Aligned_cols=62  Identities=21%  Similarity=0.222  Sum_probs=44.5

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++.||+|+.+|......-++.+|++|+|.|...--.-+...-|. .+.   ..++|++++.|
T Consensus        97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~-~~~---~~~~p~i~~iN  158 (843)
T PLN00116         97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLR-QAL---GERIRPVLTVN  158 (843)
T ss_pred             ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHH-HHH---HCCCCEEEEEE
Confidence            567899999999999877777889999999999988654333323332 222   24577777765

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.03  E-value=1e-05  Score=54.92  Aligned_cols=37  Identities=16%  Similarity=0.116  Sum_probs=30.4

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      .++.++||+|+++|......-...+|++++|.|.+..
T Consensus       104 ~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g  140 (632)
T PRK05506        104 RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKG  140 (632)
T ss_pred             ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCC
Confidence            3678999999999866555567899999999998654

>COG1159 Era GTPase [General function prediction only]

Probab=97.99  E-value=1.8e-05  Score=49.23  Aligned_cols=78  Identities=14%  Similarity=0.180  Sum_probs=50.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh--------hcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF--------RTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~--------~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||++++......                   ....+-+.||+|--+-        ......-++.+|.+++|.|.+
T Consensus        17 vGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~   96 (298)
T COG1159          17 VGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDAD   96 (298)
T ss_pred             CcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEecc
Confidence            6999999998765443                   5678889999994221        223455677999999999987


Q ss_pred             ChhHHHHHHHH-HHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNW-IRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w-~~~~~~~~~~~~piilvgN   83 (83)
                      ..-.  .-.+| ++.++.   .+.|++++.|
T Consensus        97 ~~~~--~~d~~il~~lk~---~~~pvil~iN  122 (298)
T COG1159          97 EGWG--PGDEFILEQLKK---TKTPVILVVN  122 (298)
T ss_pred             ccCC--ccHHHHHHHHhh---cCCCeEEEEE
Confidence            6322  12222 333332   3567777765

>CHL00071 tufA elongation factor Tu

Probab=97.96  E-value=2.2e-05  Score=50.88  Aligned_cols=38  Identities=18%  Similarity=0.160  Sum_probs=30.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.+.||+|+++|......-...+|++++|.|....
T Consensus        74 ~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g  111 (409)
T CHL00071         74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG  111 (409)
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCC
Confidence            34678999999998866666667899999999998753

>PRK00007 elongation factor G; Reviewed

Probab=97.92  E-value=2.7e-05  Score=53.48  Aligned_cols=63  Identities=22%  Similarity=0.318  Sum_probs=42.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...++.+.||+|+.+|..-...-++.+|++++|.|....-.-+...-| ..+.+   ...|++++.|
T Consensus        73 ~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~-~~~~~---~~~p~iv~vN  135 (693)
T PRK00007         73 KDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVW-RQADK---YKVPRIAFVN  135 (693)
T ss_pred             CCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHH-HHHHH---cCCCEEEEEE
Confidence            356889999999988866667778899999999998755333332222 22332   2456666665

>PTZ00416 elongation factor 2; Provisional

Probab=97.91  E-value=2.6e-05  Score=54.62  Aligned_cols=62  Identities=24%  Similarity=0.289  Sum_probs=43.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...+.+.||+|+.+|..-...-++.+|++|+|.|..+.-.-+...-| +.+.+   .++|++++-|
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~~---~~~p~iv~iN  152 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQALQ---ERIRPVLFIN  152 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHHH---cCCCEEEEEE
Confidence            46688999999999877778888999999999998874332222223 33332   3467777765

>PRK12736 elongation factor Tu; Reviewed

Probab=97.90  E-value=0.00012  Score=47.34  Aligned_cols=37  Identities=19%  Similarity=0.154  Sum_probs=30.4

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ...+.++||+|+++|......-...+|++++|+|.+.
T Consensus        74 ~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~  110 (394)
T PRK12736         74 KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATD  110 (394)
T ss_pred             CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence            3567899999999986655555678999999999876

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.87  E-value=4.9e-05  Score=48.05  Aligned_cols=81  Identities=19%  Similarity=0.176  Sum_probs=50.8

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCc-hhh----hcc----hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQ-ERF----RTI----TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~-~~~----~~~----~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+..+..-...                  .-..+|+.||+|- ++-    ..+    ....-.=+++++++||.+
T Consensus       179 VGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~S  258 (346)
T COG1084         179 VGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPS  258 (346)
T ss_pred             CcHHHHHHHHhcCCCccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCc
Confidence            5999998876654433                  4458999999993 211    110    011111256788999988


Q ss_pred             Chh--HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEK--SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~--s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...  +.+.=.+++++++....  .|+++|-|
T Consensus       259 e~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~n  288 (346)
T COG1084         259 ETCGYSLEEQISLLEEIKELFK--APIVVVIN  288 (346)
T ss_pred             cccCCCHHHHHHHHHHHHHhcC--CCeEEEEe
Confidence            653  34444467788887763  78888765

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

Probab=97.87  E-value=3.5e-05  Score=48.50  Aligned_cols=54  Identities=20%  Similarity=0.223  Sum_probs=34.8

Q ss_pred             CCcceeeeeeccCc------cc-------------eEEEEEEEeCCCchhhhcc-------hhhhc--cCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGC------FQ-------------HNFHINYRDTAGQERFRTI-------TTAYY--RGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~------~~-------------~~~~l~i~Dt~g~~~~~~~-------~~~~~--~~~~~~ilv~d~   52 (83)
                      +||||+++++....      |.             ...++.++||+|.......       ...+.  .+.|++++|.++
T Consensus        49 VGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rL  128 (313)
T TIGR00991        49 VGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRL  128 (313)
T ss_pred             CCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEecc
Confidence            69999999976533      11             2358999999996643211       12222  268999999665


Q ss_pred             CC
Q psy16649         53 TN   54 (83)
Q Consensus        53 ~~   54 (83)
                      +.
T Consensus       129 D~  130 (313)
T TIGR00991       129 DA  130 (313)
T ss_pred             Cc
Confidence            53

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=97.80  E-value=4.4e-05  Score=50.02  Aligned_cols=78  Identities=13%  Similarity=0.095  Sum_probs=50.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc--------chhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT--------ITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~--------~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||++.+....--                   ..+.+.+.||+|--....        -...-.+.||.+++|+|.+
T Consensus       228 vGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~  307 (454)
T COG0486         228 VGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDAS  307 (454)
T ss_pred             CcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            6999999987664432                   667899999999533221        1244677999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+-+... .++    ..+.+.|+++|.|
T Consensus       308 ~~~~~~d~~-~~~----~~~~~~~~i~v~N  332 (454)
T COG0486         308 QPLDKEDLA-LIE----LLPKKKPIIVVLN  332 (454)
T ss_pred             CCCchhhHH-HHH----hcccCCCEEEEEe
Confidence            862211111 111    2335677777765

>PRK12735 elongation factor Tu; Reviewed

Probab=97.78  E-value=0.00016  Score=46.75  Aligned_cols=38  Identities=18%  Similarity=0.160  Sum_probs=31.2

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.++||+|+++|......-...+|++++|+|..+.
T Consensus        74 ~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g  111 (396)
T PRK12735         74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG  111 (396)
T ss_pred             CcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC
Confidence            34678999999998866555667789999999999864

>PLN03127 Elongation factor Tu; Provisional

Probab=97.77  E-value=9e-05  Score=48.74  Aligned_cols=37  Identities=16%  Similarity=0.092  Sum_probs=29.3

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..+.+.||+|+++|......-...+|++++|.|.++.
T Consensus       124 ~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g  160 (447)
T PLN03127        124 RHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDG  160 (447)
T ss_pred             eEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCC
Confidence            4678999999988865444455679999999998754

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=97.71  E-value=0.00026  Score=41.45  Aligned_cols=54  Identities=19%  Similarity=0.185  Sum_probs=35.8

Q ss_pred             CCcceeeeeeccCcc-c-------------------eEEEEEEEeCCCchhhh--------cc---hhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCF-Q-------------------HNFHINYRDTAGQERFR--------TI---TTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-~-------------------~~~~l~i~Dt~g~~~~~--------~~---~~~~~~~~~~~ilv   49 (83)
                      +||||++..+..... .                   ....+.+.||+|-....        .+   ......+.|++++|
T Consensus        11 ~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illV   90 (196)
T cd01852          11 AGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLV   90 (196)
T ss_pred             CCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEE
Confidence            699999888764321 1                   23578999999954321        11   12234678999999


Q ss_pred             EECCC
Q psy16649         50 YDITN   54 (83)
Q Consensus        50 ~d~~~   54 (83)
                      .++.+
T Consensus        91 i~~~~   95 (196)
T cd01852          91 VPLGR   95 (196)
T ss_pred             EECCC
Confidence            99876

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=97.70  E-value=5.1e-05  Score=52.24  Aligned_cols=62  Identities=23%  Similarity=0.289  Sum_probs=45.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++.||+|+-+|..-...-++-+|++++|+|...--.-+.-.-|....    ..++|.+++-|
T Consensus        75 ~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~----~~~vp~i~fiN  136 (697)
T COG0480          75 DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD----KYGVPRILFVN  136 (697)
T ss_pred             ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh----hcCCCeEEEEE
Confidence            489999999999999998899999999999999987654433333343222    24566666654

>KOG1423|consensus

Probab=97.63  E-value=9.1e-05  Score=46.76  Aligned_cols=55  Identities=16%  Similarity=0.177  Sum_probs=37.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh------hhcc------hhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER------FRTI------TTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~------~~~~------~~~~~~~~~~~ilv   49 (83)
                      +|||+|+++......-                   ....+-++||+|--.      +..+      -..-..+||+++++
T Consensus        83 vGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv  162 (379)
T KOG1423|consen   83 VGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVV  162 (379)
T ss_pred             cchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEE
Confidence            5999999987654433                   667889999999321      1111      11234579999999


Q ss_pred             EECCCh
Q psy16649         50 YDITNE   55 (83)
Q Consensus        50 ~d~~~~   55 (83)
                      +|.++.
T Consensus       163 ~Das~t  168 (379)
T KOG1423|consen  163 VDASAT  168 (379)
T ss_pred             EeccCC
Confidence            999963

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

Probab=97.63  E-value=0.00015  Score=44.31  Aligned_cols=54  Identities=19%  Similarity=0.185  Sum_probs=33.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhh--c--------chhhhcc--CCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFR--T--------ITTAYYR--GAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~--~--------~~~~~~~--~~~~~ilv   49 (83)
                      +||||++..+......                   ...++.++||+|-....  .        ....|..  ..+++++|
T Consensus        42 vGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V  121 (249)
T cd01853          42 VGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYV  121 (249)
T ss_pred             CcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEE
Confidence            6999999887764321                   23578999999965331  0        1122343  56777777


Q ss_pred             EECCC
Q psy16649         50 YDITN   54 (83)
Q Consensus        50 ~d~~~   54 (83)
                      ..++.
T Consensus       122 ~rlD~  126 (249)
T cd01853         122 DRLDM  126 (249)
T ss_pred             EcCCC
Confidence            65554

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>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=97.63  E-value=0.00044  Score=44.63  Aligned_cols=66  Identities=17%  Similarity=0.209  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE----------KSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~----------~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ...+.++|.+||..-+.-|..++.+++++|+|.++++-          ..+.+.-..++.+-... -.++|++|+-|
T Consensus       235 ~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~ln  311 (389)
T PF00503_consen  235 SRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLN  311 (389)
T ss_dssp             TEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE
T ss_pred             ccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeee
Confidence            45789999999988899999999999999999998642          22333334444443322 25789988765

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 ....

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

Probab=97.62  E-value=4.7e-05  Score=42.98  Aligned_cols=57  Identities=23%  Similarity=0.229  Sum_probs=38.7

Q ss_pred             CCcceeeeeeccCccc------eEEEEEEEeCCCc----hhhhcchhhhccCCcEEEEEEECCChhH
Q psy16649          1 SGENLCTLQIFRGCFQ------HNFHINYRDTAGQ----ERFRTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------~~~~l~i~Dt~g~----~~~~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      ||||||+..+......      -.+.=.+.||+|.    .+|..-.-..-.+|+.++++.|.+++.+
T Consensus        12 ~GKTTL~q~L~~~~~~~~KTq~i~~~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~   78 (143)
T PF10662_consen   12 SGKTTLAQALNGEEIRYKKTQAIEYYDNTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRS   78 (143)
T ss_pred             CCHHHHHHHHcCCCCCcCccceeEecccEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCc
Confidence            7999999998776544      2233356899993    2233333334458999999999998744

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

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.59  E-value=0.00027  Score=45.93  Aligned_cols=39  Identities=18%  Similarity=0.128  Sum_probs=32.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...++.++||+|+++|......-+..+|++++|.|....
T Consensus        78 ~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G  116 (406)
T TIGR02034        78 DKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKG  116 (406)
T ss_pred             CCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            345788999999999966555667899999999998754

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).

>COG2262 HflX GTPases [General function prediction only]

Probab=97.59  E-value=0.00024  Score=46.07  Aligned_cols=83  Identities=14%  Similarity=0.151  Sum_probs=55.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh-h-hcchhh------hccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER-F-RTITTA------YYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~-~-~~~~~~------~~~~~~~~ilv~d~~   53 (83)
                      +||||+.+.+....--                   ....+-+-||.|-=+ . ..+.+.      -...||.++.|.|.+
T Consensus       203 AGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaS  282 (411)
T COG2262         203 AGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDAS  282 (411)
T ss_pred             ccHHHHHHHHhccCeeccccccccccCceeEEEeCCCceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecC
Confidence            6999999976643221                   123456678888322 1 112222      235799999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++..+.++.-.+-+.+..-.++|+++|-|
T Consensus       283 dp~~~~~~~~v~~vL~el~~~~~p~i~v~N  312 (411)
T COG2262         283 DPEILEKLEAVEDVLAEIGADEIPIILVLN  312 (411)
T ss_pred             ChhHHHHHHHHHHHHHHcCCCCCCEEEEEe
Confidence            998777777666666665446699999876

>KOG3887|consensus

Probab=97.58  E-value=8.1e-05  Score=45.74  Aligned_cols=54  Identities=20%  Similarity=0.271  Sum_probs=42.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc---chhhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT---ITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~---~~~~~~~~~~~~ilv~d~~~   54 (83)
                      |||||+.....++.-+                   .-+.+++||.+||-.+-.   -....++++-|.++|.|..+
T Consensus        38 sGKsSI~KVVFhkMsPneTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQd  113 (347)
T KOG3887|consen   38 SGKSSIQKVVFHKMSPNETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQD  113 (347)
T ss_pred             cCcchhhheeeeccCCCceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechH
Confidence            7999998887766655                   447899999999976522   24677899999999998754

>KOG1145|consensus

Probab=97.57  E-value=0.00019  Score=48.36  Aligned_cols=58  Identities=24%  Similarity=0.287  Sum_probs=45.5

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      -++.+.||+|+.-|..|+..=-+-+|.+++|....|   +++.+.++.       ....++|+++.-|
T Consensus       201 ~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~EaIkh-------Ak~A~VpiVvAin  261 (683)
T KOG1145|consen  201 KSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTLEAIKH-------AKSANVPIVVAIN  261 (683)
T ss_pred             CEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccHhHHHHHHH-------HHhcCCCEEEEEe
Confidence            467899999999999999999999999999997776   466555432       2336788887654

>KOG1707|consensus

Probab=97.57  E-value=0.00018  Score=48.44  Aligned_cols=80  Identities=14%  Similarity=0.240  Sum_probs=55.0

Q ss_pred             CCcceeeeeeccCccc--------eEEEEEEEeCCCchhhhcchhhh----------ccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------HNFHINYRDTAGQERFRTITTAY----------YRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------~~~~l~i~Dt~g~~~~~~~~~~~----------~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      ||||+++..|..+.+.        ..+.++..+..|+++|--++..-          =..+|.+.++||.+++.||+-+.
T Consensus       436 ~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~~~~~l~~ke~~cDv~~~~YDsS~p~sf~~~a  515 (625)
T KOG1707|consen  436 CGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGEDDQDFLTSKEAACDVACLVYDSSNPRSFEYLA  515 (625)
T ss_pred             CchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCccccccccCccceeeeEEEecccCCchHHHHHH
Confidence            7999999998885554        33445555555666653332211          05689999999999999999887


Q ss_pred             HHHHHHHHhcCCCceEEEEe
Q psy16649         63 NWIRNIEENASANVEKMLLG   82 (83)
Q Consensus        63 ~w~~~~~~~~~~~~piilvg   82 (83)
                      ..++.-...  ..+|++.|+
T Consensus       516 ~v~~~~~~~--~~~Pc~~va  533 (625)
T KOG1707|consen  516 EVYNKYFDL--YKIPCLMVA  533 (625)
T ss_pred             HHHHHhhhc--cCCceEEEe
Confidence            765554333  578888876

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.52  E-value=0.00013  Score=46.25  Aligned_cols=67  Identities=18%  Similarity=0.136  Sum_probs=46.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchh----hh---cchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQER----FR---TITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~----~~---~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||+..+..-.-.                  +..++|+.|++|--.    -+   ...-.-.++||.+++|.|+...
T Consensus        74 vGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~  153 (365)
T COG1163          74 VGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFED  153 (365)
T ss_pred             ccHHHHHHHHhCCCccccccCceecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCC
Confidence            5999999987664433                  678999999986321    11   1233567899999999999977


Q ss_pred             hH-HHHHHHHHHH
Q psy16649         56 KS-FDNIKNWIRN   67 (83)
Q Consensus        56 ~s-~~~~~~w~~~   67 (83)
                      .+ .+.+.+.++.
T Consensus       154 ~~~~~~i~~ELe~  166 (365)
T COG1163         154 PHHRDIIERELED  166 (365)
T ss_pred             hhHHHHHHHHHHh
Confidence            66 5555444433

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.47  E-value=0.00031  Score=46.56  Aligned_cols=72  Identities=11%  Similarity=0.192  Sum_probs=50.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccC----CcEEEEEEECCChhH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRG----AMGIMLVYDITNEKS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~----~~~~ilv~d~~~~~s   57 (83)
                      +|||+|+.++....-.                   ...++.+|-..|...+..+.+.-+..    --.+|+|.|++.+-.
T Consensus        36 ~GKttli~~L~~~e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~  115 (472)
T PF05783_consen   36 SGKTTLIARLQGIEDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDLSKPWN  115 (472)
T ss_pred             CchHHHHHHhhccCCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecCCChHH
Confidence            6999999887643322                   44678999988866666655443332    246788999999977


Q ss_pred             -HHHHHHHHHHHHHhc
Q psy16649         58 -FDNIKNWIRNIEENA   72 (83)
Q Consensus        58 -~~~~~~w~~~~~~~~   72 (83)
                       .+++++|+..++++.
T Consensus       116 ~~esL~~W~~vl~~~i  131 (472)
T PF05783_consen  116 IMESLEKWLSVLREHI  131 (472)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence             567889988776643

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>KOG0082|consensus

Probab=97.45  E-value=0.0014  Score=42.12  Aligned_cols=67  Identities=15%  Similarity=0.201  Sum_probs=48.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHH----------HHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF----------DNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~----------~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +...+.++|.+||-.-+.-|.++|.+++++|+|.++++-+-.          .+..++++.+-++. =.+.+++|.-|
T Consensus       193 k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLN  270 (354)
T KOG0082|consen  193 KGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLN  270 (354)
T ss_pred             CCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEee
Confidence            567889999999988899999999999999999998864321          12223444443322 15788888765

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

Probab=97.43  E-value=0.00035  Score=46.50  Aligned_cols=49  Identities=20%  Similarity=0.285  Sum_probs=39.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +.+.|++.||+|+-.|.--....+..|.|.+++.|.+.----+.+.+.+
T Consensus        74 ~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~Y  122 (603)
T COG0481          74 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVY  122 (603)
T ss_pred             CEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHH
Confidence            7799999999999999887788888999999999998653333344433

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.41  E-value=0.00015  Score=47.63  Aligned_cols=38  Identities=24%  Similarity=0.286  Sum_probs=33.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ....+++.||+|++.|..-+-.-+..+|+++.|.|...
T Consensus        79 ~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAK  116 (528)
T COG4108          79 ADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAK  116 (528)
T ss_pred             CCeEEeccCCCCccccchhHHHHHHhhheeeEEEeccc
Confidence            56789999999999998887777888999999999865

>KOG1489|consensus

Probab=97.41  E-value=0.00055  Score=43.42  Aligned_cols=83  Identities=14%  Similarity=0.252  Sum_probs=56.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh----hcchhhhc---cCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF----RTITTAYY---RGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~----~~~~~~~~---~~~~~~ilv~d~~~   54 (83)
                      +|||||+..+..-..-                   .-..+.+-|.+|--+-    +-+--.|+   ..+...++|.|++.
T Consensus       207 AGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~  286 (366)
T KOG1489|consen  207 AGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSG  286 (366)
T ss_pred             CcHHHHHHHhhccCCcccccceeeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCC
Confidence            6899998876543322                   1223788899884221    22333344   46899999999999


Q ss_pred             h---hHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 E---KSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~---~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      .   +-++.++.+..|+..+..  .+-|.++|+|
T Consensus       287 ~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaN  320 (366)
T KOG1489|consen  287 KQLRNPWQQLQLLIEELELYEKGLADRPALIVAN  320 (366)
T ss_pred             cccCCHHHHHHHHHHHHHHHhhhhccCceEEEEe
Confidence            9   888888888888866542  5677788876

>PRK13768 GTPase; Provisional

Probab=97.40  E-value=0.00054  Score=41.93  Aligned_cols=63  Identities=13%  Similarity=0.063  Sum_probs=38.6

Q ss_pred             EEEEEeCCCchhh---hcchhhhccC-----CcEEEEEEECCChhHHHHH--HHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQERF---RTITTAYYRG-----AMGIMLVYDITNEKSFDNI--KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~---~~~~~~~~~~-----~~~~ilv~d~~~~~s~~~~--~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+||++|+.+.   +..++.+++.     ++++++++|.+...+-...  ..|+....... .+.|+++|.|
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~-~~~~~i~v~n  170 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR-LGLPQIPVLN  170 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH-cCCCEEEEEE
Confidence            6789999998764   3444444443     8899999999654433332  23333333222 4678888765

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.40  E-value=0.00055  Score=45.41  Aligned_cols=38  Identities=16%  Similarity=0.126  Sum_probs=30.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.++||+|+++|......-.+.+|++++|.|.+..
T Consensus       106 ~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G  143 (474)
T PRK05124        106 KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKG  143 (474)
T ss_pred             CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            45788999999999865444456999999999998753

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.31  E-value=0.00028  Score=45.24  Aligned_cols=50  Identities=18%  Similarity=0.246  Sum_probs=40.0

Q ss_pred             CchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         28 GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        28 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..++|..+.+.+++.++.+++|+|+.+..     ..|.+++.+.. .+.|+++|+|
T Consensus        49 ~~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~N   98 (360)
T TIGR03597        49 NDDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGN   98 (360)
T ss_pred             CHHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEE
Confidence            46789999999999999999999997654     44777777665 3678889987

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.

>cd01855 YqeH YqeH

Probab=97.26  E-value=0.00036  Score=40.62  Aligned_cols=46  Identities=17%  Similarity=0.169  Sum_probs=33.6

Q ss_pred             hhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         32 FRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        32 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.++..++++++++++|+|+++...     .|.+++.... .+.|+++|+|
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~N   69 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGN   69 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEE
Confidence            57788999999999999999987642     2333442222 4678888887

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=97.14  E-value=0.0015  Score=45.41  Aligned_cols=38  Identities=29%  Similarity=0.369  Sum_probs=33.6

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.+.||+|+.+|.......++.+|++|+|.|....
T Consensus        86 ~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g  123 (731)
T PRK07560         86 EYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEG  123 (731)
T ss_pred             cEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCC
Confidence            56788999999999988888889999999999998765

>KOG0462|consensus

Probab=97.12  E-value=0.0036  Score=42.43  Aligned_cols=40  Identities=23%  Similarity=0.345  Sum_probs=36.3

Q ss_pred             ceEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         16 QHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        16 ~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      .+.+.|++.||+|+-+|+.-....+.-++|+|++.|...-
T Consensus       122 ~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qG  161 (650)
T KOG0462|consen  122 GQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQG  161 (650)
T ss_pred             CCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcC
Confidence            3789999999999999999888999999999999998764

>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=97.11  E-value=0.0018  Score=36.71  Aligned_cols=53  Identities=17%  Similarity=0.257  Sum_probs=39.7

Q ss_pred             EEEEEEeCCCchh----hhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHh
Q psy16649         19 FHINYRDTAGQER----FRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        19 ~~l~i~Dt~g~~~----~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~   71 (83)
                      ..+.+.||+|-..    ...+...|++.+|++|+|.+.+..-+-.....+.+.....
T Consensus       101 ~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~  157 (168)
T PF00350_consen  101 RNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD  157 (168)
T ss_dssp             CSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT
T ss_pred             cceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC
Confidence            3578999999643    3467888999999999999999866655666666555544

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 ....

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.11  E-value=0.0015  Score=40.66  Aligned_cols=42  Identities=10%  Similarity=0.156  Sum_probs=34.7

Q ss_pred             hccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         39 YYRGAMGIMLVYDITNEK-SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        39 ~~~~~~~~ilv~d~~~~~-s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.++|.+++|+|++++. ++..+++|+..+..   .++|+++|.|
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlN  117 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLT  117 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEE
Confidence            377899999999999998 88999999887754   3577788776

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=96.97  E-value=0.011  Score=38.49  Aligned_cols=38  Identities=16%  Similarity=0.134  Sum_probs=31.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.+.||+|+++|......-...+|++++|.|.+..
T Consensus        74 ~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g  111 (396)
T PRK00049         74 KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADG  111 (396)
T ss_pred             CeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC
Confidence            45678999999998866666667899999999998764

>KOG1954|consensus

Probab=96.97  E-value=0.00062  Score=44.22  Aligned_cols=60  Identities=18%  Similarity=0.280  Sum_probs=38.3

Q ss_pred             EEEEEeCCCch-----------hhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEE
Q psy16649         20 HINYRDTAGQE-----------RFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKML   80 (83)
Q Consensus        20 ~l~i~Dt~g~~-----------~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piil   80 (83)
                      ++.|.||+|-=           .|....+.|...+|.++++||....+--.+-+.-++.++.+. +++.++|
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~E-dkiRVVL  218 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHE-DKIRVVL  218 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCc-ceeEEEe
Confidence            56789999831           123456788899999999998766544444444454554432 4555544

>KOG1144|consensus

Probab=96.96  E-value=0.0026  Score=44.57  Aligned_cols=58  Identities=19%  Similarity=0.155  Sum_probs=43.0

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      --+.+.||+|+|.|..++.....-||.+|+|.|+..   +++.+++..+    +   ..+.|+|+.-|
T Consensus       540 Pg~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~lL----R---~rktpFivALN  600 (1064)
T KOG1144|consen  540 PGLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLL----R---MRKTPFIVALN  600 (1064)
T ss_pred             CeeEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHHHH----H---hcCCCeEEeeh
Confidence            457789999999999999999999999999999975   4444443322    1   14566666544

>PRK12289 GTPase RsgA; Reviewed

Probab=96.95  E-value=0.0018  Score=41.55  Aligned_cols=48  Identities=17%  Similarity=0.212  Sum_probs=36.2

Q ss_pred             hcchhhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         33 RTITTAYYRGAMGIMLVYDITNEK-SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        33 ~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+....+.++|.+++|+|+.++. +...+.+|+..+..   .++|++||.|
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlN  128 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLN  128 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEE
Confidence            345556788999999999999876 55677888766532   4688888887

>COG0218 Predicted GTPase [General function prediction only]

Probab=96.90  E-value=0.0027  Score=37.74  Aligned_cols=77  Identities=10%  Similarity=0.170  Sum_probs=47.0

Q ss_pred             CCcceeeeeeccCccc-----------------eEEEEEEEeCCC----------chhhhcchhhhccC---CcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-----------------HNFHINYRDTAG----------QERFRTITTAYYRG---AMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------------~~~~l~i~Dt~g----------~~~~~~~~~~~~~~---~~~~ilv~   50 (83)
                      +||||+++.+....--                 -.-.+.+.|.+|          +|.+..+...|++.   -.+++++.
T Consensus        35 VGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlli  114 (200)
T COG0218          35 VGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLI  114 (200)
T ss_pred             ccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCcEEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEE
Confidence            5999999988875421                 111267788887          45666777778774   45677777


Q ss_pred             ECCChhHHHHH--HHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNI--KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~--~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |....-.-.+.  -+|+.+      .++|++++.|
T Consensus       115 D~r~~~~~~D~em~~~l~~------~~i~~~vv~t  143 (200)
T COG0218         115 DARHPPKDLDREMIEFLLE------LGIPVIVVLT  143 (200)
T ss_pred             ECCCCCcHHHHHHHHHHHH------cCCCeEEEEE
Confidence            87654332222  233322      4677777764

>PRK00098 GTPase RsgA; Reviewed

Probab=96.89  E-value=0.0019  Score=40.46  Aligned_cols=40  Identities=10%  Similarity=0.200  Sum_probs=31.4

Q ss_pred             cCCcEEEEEEECCChhHHHH-HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         41 RGAMGIMLVYDITNEKSFDN-IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        41 ~~~~~~ilv~d~~~~~s~~~-~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++|.+++|+|+++++++.. +.+|+..+..   .++|+++|.|
T Consensus        79 aniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlN  119 (298)
T PRK00098         79 ANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLN  119 (298)
T ss_pred             ecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEE
Confidence            78999999999998877555 5788777643   4678888876

>KOG3905|consensus

Probab=96.85  E-value=0.0028  Score=40.70  Aligned_cols=72  Identities=11%  Similarity=0.131  Sum_probs=48.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCC----cEEEEEEECCCh-h
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGA----MGIMLVYDITNE-K   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~----~~~ilv~d~~~~-~   56 (83)
                      +|||+|+.++..-.-.                   ...++.+|-..|.--...+...-+...    ..+|++-|++++ .
T Consensus        63 sGKtsLi~klqg~e~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms~Pw~  142 (473)
T KOG3905|consen   63 SGKTSLISKLQGSETVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMSNPWT  142 (473)
T ss_pred             CchhHHHHHhhcccccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccceEEEEEEecCCcHH
Confidence            6999999887654322                   334566777777554444443333321    356888999999 6


Q ss_pred             HHHHHHHHHHHHHHhc
Q psy16649         57 SFDNIKNWIRNIEENA   72 (83)
Q Consensus        57 s~~~~~~w~~~~~~~~   72 (83)
                      -++++++|..-++++.
T Consensus       143 ~lesLqkWa~Vl~ehi  158 (473)
T KOG3905|consen  143 LLESLQKWASVLREHI  158 (473)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6889999988887754

>KOG1191|consensus

Probab=96.82  E-value=0.0018  Score=43.11  Aligned_cols=52  Identities=21%  Similarity=0.128  Sum_probs=37.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh-h-hc-------chhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER-F-RT-------ITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~-~-~~-------~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||++.+....-.                   .-+.+.+.||+|--+ - ..       -...-.+.||.+++|+|.
T Consensus       279 vGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda  358 (531)
T KOG1191|consen  279 VGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDA  358 (531)
T ss_pred             CCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecc
Confidence            6999999988765443                   557888999999533 1 11       123455689999999998

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=96.78  E-value=0.0023  Score=38.14  Aligned_cols=53  Identities=21%  Similarity=0.204  Sum_probs=31.0

Q ss_pred             CCcceeeeeeccCcc-c-------------------eEEEEEEEeCCCchhh--------hcc---hhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCF-Q-------------------HNFHINYRDTAGQERF--------RTI---TTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~-~-------------------~~~~l~i~Dt~g~~~~--------~~~---~~~~~~~~~~~ilv   49 (83)
                      |||||+...+..... .                   ....+.++||+|--..        ..+   ......+.|++++|
T Consensus        11 sGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llV   90 (212)
T PF04548_consen   11 SGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLV   90 (212)
T ss_dssp             SSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEE
T ss_pred             CCHHHHHHHHhcccceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEE
Confidence            688888877553222 1                   2367889999983211        111   12334579999999


Q ss_pred             EECC
Q psy16649         50 YDIT   53 (83)
Q Consensus        50 ~d~~   53 (83)
                      ....
T Consensus        91 i~~~   94 (212)
T PF04548_consen   91 IPLG   94 (212)
T ss_dssp             EETT
T ss_pred             EecC
Confidence            9988

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.72  E-value=0.0033  Score=41.56  Aligned_cols=39  Identities=21%  Similarity=0.147  Sum_probs=25.3

Q ss_pred             CCcEEEEEE-ECC----ChhHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVY-DIT----NEKSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~-d~~----~~~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++..|+|. |-+    .++.+...+ +|++++++.   +.|+++|-|
T Consensus       144 hstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~---~kPfiivlN  188 (492)
T TIGR02836       144 HSTIGVVVTTDGTITDIPREDYVEAEERVIEELKEL---NKPFIILLN  188 (492)
T ss_pred             cCcEEEEEEcCCCccccccccchHHHHHHHHHHHhc---CCCEEEEEE
Confidence            788888887 553    234455554 788888764   466666654

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

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

Probab=96.66  E-value=0.0072  Score=42.05  Aligned_cols=73  Identities=16%  Similarity=0.188  Sum_probs=44.0

Q ss_pred             CCcceeeeeeccCc-cc------------------eEEEEEEEeCCCchhhh-------c---chhhhcc--CCcEEEEE
Q psy16649          1 SGENLCTLQIFRGC-FQ------------------HNFHINYRDTAGQERFR-------T---ITTAYYR--GAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~-~~------------------~~~~l~i~Dt~g~~~~~-------~---~~~~~~~--~~~~~ilv   49 (83)
                      +||||+++.+.... |.                  ....+.++||+|-....       .   ....++.  ..|++|+|
T Consensus       129 VGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV  208 (763)
T TIGR00993       129 VGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYV  208 (763)
T ss_pred             CCHHHHHHHHhccccccccCCCCCceEEEEEEEEECCceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEE
Confidence            58999888766543 22                  22468899999964321       1   1222433  58999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhcC
Q psy16649         50 YDITNEKSFDNIKNWIRNIEENAS   73 (83)
Q Consensus        50 ~d~~~~~s~~~~~~w~~~~~~~~~   73 (83)
                      .+++......+-..+++.+.+..+
T Consensus       209 ~RLd~~~~D~eD~~aLr~Iq~lFG  232 (763)
T TIGR00993       209 DRLDMQTRDSNDLPLLRTITDVLG  232 (763)
T ss_pred             EeCCCccccHHHHHHHHHHHHHhC
Confidence            988644433233356666666554

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=96.64  E-value=0.0015  Score=43.52  Aligned_cols=38  Identities=24%  Similarity=0.329  Sum_probs=34.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      +.++++|.||+|+..|..-.+.-++-.|+++++.|..+
T Consensus        66 ~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~E  103 (603)
T COG1217          66 NGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASE  103 (603)
T ss_pred             CCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEccc
Confidence            66899999999999999888899999999999999865

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.63  E-value=0.005  Score=40.30  Aligned_cols=40  Identities=18%  Similarity=0.195  Sum_probs=33.9

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      ..+.+.|.|++|+..|-.-.-.-..+||+.|||.|..+.+
T Consensus        83 ~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~e  122 (428)
T COG5256          83 DKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGE  122 (428)
T ss_pred             CCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCc
Confidence            5568999999999888777677788999999999988763

>PRK12288 GTPase RsgA; Reviewed

Probab=96.59  E-value=0.0045  Score=39.68  Aligned_cols=39  Identities=21%  Similarity=0.307  Sum_probs=31.8

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++|.+++|++++...++..++.|+..+. .  .++|.+||.|
T Consensus       120 NvD~vlIV~s~~p~~s~~~Ldr~L~~a~-~--~~i~~VIVlN  158 (347)
T PRK12288        120 NIDQIVIVSAVLPELSLNIIDRYLVACE-T--LGIEPLIVLN  158 (347)
T ss_pred             EccEEEEEEeCCCCCCHHHHHHHHHHHH-h--cCCCEEEEEE
Confidence            4899999999999999999999987553 2  4577778876

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=96.59  E-value=0.0023  Score=41.34  Aligned_cols=36  Identities=19%  Similarity=0.152  Sum_probs=28.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEEC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      ..-++.|-||+|+|+|-.....=-..||..|+..|.
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDA  119 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDA  119 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEec
Confidence            556888999999999966555555677888888776

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.58  E-value=0.0091  Score=39.45  Aligned_cols=60  Identities=25%  Similarity=0.117  Sum_probs=41.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcch-----------hhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTIT-----------TAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~-----------~~~~~~~~~~ilv~   50 (83)
                      +|||||++.+....-.                   ..-++.+.||+|..+-....           ..-...++.+++|.
T Consensus       189 vGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllvi  268 (444)
T COG1160         189 VGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVI  268 (444)
T ss_pred             CCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEE
Confidence            5999999998765433                   34467789999954322221           23345799999999


Q ss_pred             ECCChhHHHH
Q psy16649         51 DITNEKSFDN   60 (83)
Q Consensus        51 d~~~~~s~~~   60 (83)
                      |.+..-+-+.
T Consensus       269 Da~~~~~~qD  278 (444)
T COG1160         269 DATEGISEQD  278 (444)
T ss_pred             ECCCCchHHH
Confidence            9998766444

>cd01900 YchF YchF subfamily

Probab=96.41  E-value=0.0054  Score=38.17  Aligned_cols=34  Identities=21%  Similarity=0.142  Sum_probs=22.8

Q ss_pred             EEEEEeCCCchh----hhcch---hhhccCCcEEEEEEECC
Q psy16649         20 HINYRDTAGQER----FRTIT---TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        20 ~l~i~Dt~g~~~----~~~~~---~~~~~~~~~~ilv~d~~   53 (83)
                      .+++.|++|--+    ...+.   -..++++|+++.|.|..
T Consensus        63 ~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          63 TIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             EEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            489999999432    11222   23356899999999863

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=96.33  E-value=0.022  Score=37.93  Aligned_cols=37  Identities=11%  Similarity=0.136  Sum_probs=30.8

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..+.+.|++|+++|....-.-...+|++++|.|.++.
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g  153 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANES  153 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            3678999999999976656667799999999999863

>cd01859 MJ1464 MJ1464

Probab=96.26  E-value=0.0075  Score=33.93  Aligned_cols=48  Identities=8%  Similarity=0.142  Sum_probs=29.8

Q ss_pred             hhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         32 FRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        32 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+..+..+++|.+++|+|.+++..... ..+.+.+.   ..+.|+++|.|
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~N   49 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLN   49 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEE
Confidence            35567788888999999999987643322 12222221   13567788776

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.

>PTZ00258 GTP-binding protein; Provisional

Probab=96.24  E-value=0.0097  Score=38.82  Aligned_cols=34  Identities=21%  Similarity=0.199  Sum_probs=22.9

Q ss_pred             EEEEEeCCCchhh----hcch---hhhccCCcEEEEEEECC
Q psy16649         20 HINYRDTAGQERF----RTIT---TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        20 ~l~i~Dt~g~~~~----~~~~---~~~~~~~~~~ilv~d~~   53 (83)
                      .+++.||+|--.-    ..+.   -..++.+|++++|.|..
T Consensus        86 qi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         86 QLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            4899999994321    1122   23456899999999974

>cd01882 BMS1 Bms1

Probab=96.24  E-value=0.013  Score=35.26  Aligned_cols=53  Identities=8%  Similarity=0.086  Sum_probs=34.0

Q ss_pred             CCcceeeeeeccCcc---------------ceEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh
Q psy16649          1 SGENLCTLQIFRGCF---------------QHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~---------------~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      +|||+++..+....-               ....++.+.||+|.-  ..+. ...+.+|.++++.|.+...
T Consensus        50 ~GKstl~~~l~~~~~~~~~~~~~g~i~i~~~~~~~i~~vDtPg~~--~~~l-~~ak~aDvVllviDa~~~~  117 (225)
T cd01882          50 VGKTTLIKSLVKNYTKQNISDIKGPITVVTGKKRRLTFIECPNDI--NAMI-DIAKVADLVLLLIDASFGF  117 (225)
T ss_pred             CCHHHHHHHHHhhcccCccccccccEEEEecCCceEEEEeCCchH--HHHH-HHHHhcCEEEEEEecCcCC
Confidence            588888855443210               133456788999853  2222 2357899999999987543

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.

>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=96.21  E-value=0.046  Score=26.27  Aligned_cols=40  Identities=15%  Similarity=0.248  Sum_probs=25.2

Q ss_pred             CcEEEEEEECCChhHH--HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         43 AMGIMLVYDITNEKSF--DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        43 ~~~~ilv~d~~~~~s~--~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++++++++|++..--+  ++=-..+++++... ++.|+++|.|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~n   55 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLN   55 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE-
T ss_pred             cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEe
Confidence            4678999999976443  33345677787766 5888888876

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=96.21  E-value=0.016  Score=38.37  Aligned_cols=38  Identities=18%  Similarity=0.115  Sum_probs=33.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ....+.+.||+|+++|......-...+|++++|.|.+.
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~  120 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTA  120 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCC
Confidence            45788999999999997777777889999999999875

>PRK09866 hypothetical protein; Provisional

Probab=96.17  E-value=0.028  Score=39.15  Aligned_cols=64  Identities=20%  Similarity=0.213  Sum_probs=40.7

Q ss_pred             EEEEEEEeCCCchh-----hhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQER-----FRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~-----~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...+.+.||+|-..     ........+..+|++++|.|.++.-+..+ ....+.+++.. ...|+++|.|
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVN  297 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVN  297 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEE
Confidence            45667899999643     22233457899999999999987544333 22333443322 3468888876

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=96.10  E-value=0.0032  Score=35.08  Aligned_cols=15  Identities=7%  Similarity=-0.108  Sum_probs=11.9

Q ss_pred             CCcceeeeeeccCcc
Q psy16649          1 SGENLCTLQIFRGCF   15 (83)
Q Consensus         1 ~GKss~~~~~~~~~~   15 (83)
                      +||||++.++.....
T Consensus        94 vGKstlin~l~~~~~  108 (141)
T cd01857          94 VGKSSLINALVGKKK  108 (141)
T ss_pred             CCHHHHHHHHhCCCc
Confidence            699999988876554

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=96.07  E-value=0.011  Score=32.84  Aligned_cols=42  Identities=14%  Similarity=0.285  Sum_probs=27.7

Q ss_pred             hhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         38 AYYRGAMGIMLVYDITNEKSFD--NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        38 ~~~~~~~~~ilv~d~~~~~s~~--~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+..+|.+++|+|..++.+..  .+.+|+...   . .+.|+++|.|
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlN   50 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLN   50 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEe
Confidence            4467889999999998876644  344554432   1 3567777766

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=95.93  E-value=0.018  Score=37.07  Aligned_cols=83  Identities=10%  Similarity=0.095  Sum_probs=52.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh----hhcchhhhc---cCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER----FRTITTAYY---RGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~----~~~~~~~~~---~~~~~~ilv~d~~~   54 (83)
                      +|||||+..+..-...                   ..-.+.+=|.+|-=.    -.-+-..|+   ..+..++.|.|++.
T Consensus       170 aGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~  249 (369)
T COG0536         170 AGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSP  249 (369)
T ss_pred             CcHHHHHHHHhhcCCcccCCccccccCcccEEEecCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCc
Confidence            6999998876543322                   222366677776311    122333344   46788999999997


Q ss_pred             hhH---HHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 EKS---FDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~~s---~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      .+-   .++.+....++..+.+  .+-|.+||+|
T Consensus       250 ~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~N  283 (369)
T COG0536         250 IDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLN  283 (369)
T ss_pred             ccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEe
Confidence            653   6666777777777653  4567777776

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=95.78  E-value=0.006  Score=39.58  Aligned_cols=51  Identities=10%  Similarity=-0.002  Sum_probs=28.3

Q ss_pred             CCcceeeeeecc--Cccc--------------------eEEEEEEEeCCCchhhhcchhhh-----ccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFR--GCFQ--------------------HNFHINYRDTAGQERFRTITTAY-----YRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~--~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~-----~~~~~~~ilv~d   51 (83)
                      +||||+++.+..  +.-+                    +.-++.+||.+|...-......|     +..-|.+|++.+
T Consensus        46 sGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s  123 (376)
T PF05049_consen   46 SGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISS  123 (376)
T ss_dssp             SSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-TTEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEES
T ss_pred             CCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeC
Confidence            699999987732  1111                    22368899999965433333333     456788888765

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>KOG0099|consensus

Probab=95.74  E-value=0.12  Score=32.65  Aligned_cols=38  Identities=16%  Similarity=0.238  Sum_probs=34.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ..++++++|.+||..-+.-|-..+.+..|+|+|...++
T Consensus       200 dkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSs  237 (379)
T KOG0099|consen  200 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSS  237 (379)
T ss_pred             cccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccc
Confidence            56789999999999999999999999999999987664

>KOG0465|consensus

Probab=95.72  E-value=0.036  Score=38.23  Aligned_cols=38  Identities=29%  Similarity=0.360  Sum_probs=31.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ...+++|.||+|+-.|---...-++-.|+++++.|...
T Consensus       102 ~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~  139 (721)
T KOG0465|consen  102 RDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVA  139 (721)
T ss_pred             ccceeEEecCCCceeEEEEehhhhhhccCeEEEEEccc
Confidence            67899999999999887767777788888888887654

>cd01859 MJ1464 MJ1464

Probab=95.62  E-value=0.0027  Score=35.74  Aligned_cols=13  Identities=8%  Similarity=-0.043  Sum_probs=10.2

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      +|||+++.++..+
T Consensus       112 ~Gkssl~~~l~~~  124 (156)
T cd01859         112 VGKSSIINALKGR  124 (156)
T ss_pred             CCHHHHHHHHhCC
Confidence            5899998887753

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.

>KOG1532|consensus

Probab=95.29  E-value=0.012  Score=37.06  Aligned_cols=14  Identities=36%  Similarity=0.418  Sum_probs=10.6

Q ss_pred             eEEEEEEEeCCCch
Q psy16649         17 HNFHINYRDTAGQE   30 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~   30 (83)
                      ..+...+.||+||-
T Consensus       114 ~~~~~~liDTPGQI  127 (366)
T KOG1532|consen  114 EEFDYVLIDTPGQI  127 (366)
T ss_pred             cccCEEEEcCCCce
Confidence            45677888999983

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=95.24  E-value=0.071  Score=39.30  Aligned_cols=42  Identities=12%  Similarity=0.207  Sum_probs=30.3

Q ss_pred             CCcEEEEEEECCChhH-----H----HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKS-----F----DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s-----~----~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+|+|++.|+.+.-.     .    ..++..++++.+..+-.+|+.||-+
T Consensus       201 plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~T  251 (1169)
T TIGR03348       201 PLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLT  251 (1169)
T ss_pred             CCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEe
Confidence            5899999999876421     1    2355667777777778999988753

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=95.16  E-value=0.072  Score=34.60  Aligned_cols=34  Identities=24%  Similarity=0.185  Sum_probs=23.2

Q ss_pred             EEEEEeCCCchhh----hcch---hhhccCCcEEEEEEECC
Q psy16649         20 HINYRDTAGQERF----RTIT---TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        20 ~l~i~Dt~g~~~~----~~~~---~~~~~~~~~~ilv~d~~   53 (83)
                      .+++.|++|-..-    ..+.   -..++.+|+++.|.|..
T Consensus        67 ~i~lvD~pGL~~~a~~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         67 TIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             eEEEEECCCCCCCCChHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            5899999994321    1122   23457899999999974

>cd01856 YlqF YlqF

Probab=95.00  E-value=0.0062  Score=34.95  Aligned_cols=15  Identities=7%  Similarity=-0.051  Sum_probs=11.9

Q ss_pred             CCcceeeeeeccCcc
Q psy16649          1 SGENLCTLQIFRGCF   15 (83)
Q Consensus         1 ~GKss~~~~~~~~~~   15 (83)
                      +||||++.++....+
T Consensus       126 vGKstlin~l~~~~~  140 (171)
T cd01856         126 VGKSTLINRLRGKKV  140 (171)
T ss_pred             CCHHHHHHHHhCCCc
Confidence            699999888876554

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.

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

Probab=94.86  E-value=0.091  Score=36.50  Aligned_cols=57  Identities=16%  Similarity=0.121  Sum_probs=39.2

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh------cchhhhcc--CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR------TITTAYYR--GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~------~~~~~~~~--~~~~~ilv~d~~~   54 (83)
                      +|||++.+++......                  +.-++++.|.+|-....      .....|+.  ..|.++-|.|.+|
T Consensus        14 vGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtn   93 (653)
T COG0370          14 VGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATN   93 (653)
T ss_pred             ccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccch
Confidence            6999999887653322                  34468899999965432      23344443  5799999999998


Q ss_pred             hhH
Q psy16649         55 EKS   57 (83)
Q Consensus        55 ~~s   57 (83)
                      .+.
T Consensus        94 LeR   96 (653)
T COG0370          94 LER   96 (653)
T ss_pred             HHH
Confidence            764

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=94.83  E-value=0.34  Score=26.91  Aligned_cols=61  Identities=11%  Similarity=0.129  Sum_probs=37.8

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+.|+++..  .......+..+|.++++.+.+ ..++..+...++.+.+.. ...++.+|.|
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~-~~~~~~lVvN  105 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL-RVLNFRVVVN  105 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc-CCCCEEEEEe
Confidence            677889998642  233356788999999988764 555666555555555433 2334444443

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>KOG0458|consensus

Probab=94.66  E-value=0.076  Score=36.37  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=31.6

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ....+.|.|++|+..|-...-.-...||+.+||.|.+-
T Consensus       253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~  290 (603)
T KOG0458|consen  253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAST  290 (603)
T ss_pred             CceeEEEecCCCccccchhhhccccccceEEEEEECCc
Confidence            55788899999998887766666778999999999764

>KOG0464|consensus

Probab=94.57  E-value=0.017  Score=38.43  Aligned_cols=38  Identities=29%  Similarity=0.383  Sum_probs=34.5

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      +..++++.||+|+-.|+--...+++--|+++.|||.+-
T Consensus       100 kg~rinlidtpghvdf~leverclrvldgavav~dasa  137 (753)
T KOG0464|consen  100 KGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASA  137 (753)
T ss_pred             ccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccC
Confidence            66788999999999999989999999999999999864

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=94.48  E-value=0.2  Score=28.73  Aligned_cols=61  Identities=13%  Similarity=0.078  Sum_probs=41.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+-|.||++...  ......+..+|.++++...+ ..+...+..+.+.+++.   +.|+.+|.|
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N  151 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVIN  151 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEe
Confidence            467889999986532  12334568899999998876 45677777777766643   344556654

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PF13173 AAA_14: AAA domain

Probab=94.12  E-value=0.036  Score=30.31  Aligned_cols=15  Identities=13%  Similarity=0.171  Sum_probs=12.7

Q ss_pred             CCcceeeeeeccCcc
Q psy16649          1 SGENLCTLQIFRGCF   15 (83)
Q Consensus         1 ~GKss~~~~~~~~~~   15 (83)
                      ||||+++.++.....
T Consensus        13 vGKTtll~~~~~~~~   27 (128)
T PF13173_consen   13 VGKTTLLKQLAKDLL   27 (128)
T ss_pred             CCHHHHHHHHHHHhc
Confidence            799999999987654

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=94.10  E-value=0.23  Score=26.78  Aligned_cols=39  Identities=10%  Similarity=0.087  Sum_probs=29.5

Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         45 GIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        45 ~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .-+++++.++...+..+.++.+++++..++++++++-|+
T Consensus        51 pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~   89 (119)
T cd02067          51 ADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGA   89 (119)
T ss_pred             CCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECC
Confidence            335555777788889999999999987533788888764

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.

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

Probab=93.85  E-value=0.034  Score=31.16  Aligned_cols=57  Identities=16%  Similarity=0.162  Sum_probs=32.0

Q ss_pred             CCcceeeeeeccCccc----eEEEE---EEEeCCCc----hhhhcchhhhccCCcEEEEEEECCChhH
Q psy16649          1 SGENLCTLQIFRGCFQ----HNFHI---NYRDTAGQ----ERFRTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----~~~~l---~i~Dt~g~----~~~~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      ||||++...+..+.--    +-++.   ...||+|-    .++..-.......++.++++-..++++|
T Consensus        12 cGKTtL~q~L~G~~~lykKTQAve~~d~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s   79 (148)
T COG4917          12 CGKTTLFQSLYGNDTLYKKTQAVEFNDKGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPES   79 (148)
T ss_pred             cCchhHHHHhhcchhhhcccceeeccCccccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccc
Confidence            7999998887654322    22333   25688873    2222222333456777777776666633

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=93.79  E-value=0.15  Score=32.12  Aligned_cols=65  Identities=11%  Similarity=0.162  Sum_probs=40.4

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCCchhhhcchhhhccC--CcEEEEEEECCChhHHHHHHHHHHHHHHh
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRG--AMGIMLVYDITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~--~~~~ilv~d~~~~~s~~~~~~w~~~~~~~   71 (83)
                      ||||+++..+....      ....|-...+-+..+.......  ...+.++.|+.+.+.++.....+..+++.
T Consensus        17 sGKtt~~~~l~~~g------~~~~d~~~~~L~~~l~~~~~~~~~~~~~av~iD~r~~~~~~~~~~~~~~L~~~   83 (288)
T PRK05416         17 AGKSVALRALEDLG------YYCVDNLPPSLLPKLVELLAQSGGIRKVAVVIDVRSRPFFDDLPEALDELRER   83 (288)
T ss_pred             CcHHHHHHHHHHcC------CeEECCcCHHHHHHHHHHHHhcCCCCCeEEEEccCchhhHHHHHHHHHHHHHc
Confidence            79999999885432      2233444333344443333332  35577888999887666777777777765

>KOG0467|consensus

Probab=93.55  E-value=0.25  Score=35.17  Aligned_cols=50  Identities=20%  Similarity=0.503  Sum_probs=38.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHH-HHHH
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIK-NWIR   66 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~-~w~~   66 (83)
                      +.+.+++.|++|+-+|.+....-.+=+|++++..|+..   .++..-++ .|.+
T Consensus        70 ~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~  123 (887)
T KOG0467|consen   70 KDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIE  123 (887)
T ss_pred             CceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHc
Confidence            67899999999999999888888888899999888865   34444444 3543

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=93.44  E-value=0.21  Score=33.21  Aligned_cols=37  Identities=19%  Similarity=0.156  Sum_probs=29.6

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      ....+.+.|.+|++++-...-.-....|++++|.+.+
T Consensus        48 ~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~d   84 (447)
T COG3276          48 EDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAAD   84 (447)
T ss_pred             CCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCc
Confidence            4457888999999998666566667889999999884

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=93.43  E-value=0.45  Score=31.04  Aligned_cols=64  Identities=17%  Similarity=0.219  Sum_probs=49.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+.++|.+  .........++.++|.+++|.+. +--|+.+.++.++++++..+++.+..+|-|
T Consensus       216 ~~~~~vV~Dlp--~~~~~~t~~vL~~Sd~iviv~e~-sl~slR~ak~lld~l~~~r~~~~~p~lv~n  279 (366)
T COG4963         216 GSFDFVVVDLP--NIWTDWTRQVLSGSDEIVIVAEP-SLASLRNAKELLDELKRLRPNDPKPILVLN  279 (366)
T ss_pred             ccCCeEEEcCC--CccchHHHHHHhcCCeEEEEecc-cHHHHHHHHHHHHHHHHhCCCCCCceEEee
Confidence            45778899988  33345667889999999999986 467788889999999998766665555543

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=93.39  E-value=0.037  Score=34.33  Aligned_cols=29  Identities=14%  Similarity=0.108  Sum_probs=20.7

Q ss_pred             CCcceeeeeeccCccc------------eEE----EEEEEeCCCc
Q psy16649          1 SGENLCTLQIFRGCFQ------------HNF----HINYRDTAGQ   29 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------~~~----~l~i~Dt~g~   29 (83)
                      +||||++.++......            +.+    .+.++||+|.
T Consensus       129 vGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPG~  173 (276)
T TIGR03596       129 VGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKLSDGLELLDTPGI  173 (276)
T ss_pred             CCHHHHHHHHhCCCccccCCCCCeecceEEEEeCCCEEEEECCCc
Confidence            6999999988654321            222    4689999997

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=93.18  E-value=0.3  Score=29.82  Aligned_cols=62  Identities=13%  Similarity=0.082  Sum_probs=30.1

Q ss_pred             EEEEEeCCCchhhhcchhhhc--------cCCcEEEEEEECCCh---hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQERFRTITTAYY--------RGAMGIMLVYDITNE---KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~~~~~~~--------~~~~~~ilv~d~~~~---~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..-|+||+||.++-..++...        ...-+++++.|....   ..|-+.  ++-.+.-...-++|.+.|-|
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~--~L~s~s~~~~~~lP~vnvls  164 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSS--LLLSLSIMLRLELPHVNVLS  164 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHH--HHHHHHHHHHHTSEEEEEE-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHH--HHHHHHHHhhCCCCEEEeee
Confidence            788999999988765555444        455677788886643   334332  22122111113677776643

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PHA02518 ParA-like protein; Provisional

Probab=93.14  E-value=0.65  Score=27.12  Aligned_cols=51  Identities=16%  Similarity=0.130  Sum_probs=33.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH---HHHHHHHHHHH
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD---NIKNWIRNIEE   70 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~---~~~~w~~~~~~   70 (83)
                      ..+.+.|+|++|..  ......-+..+|.+|++...+ +.++.   ++.+++++...
T Consensus        75 ~~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps-~~~~~~~~~~~~~~~~~~~  128 (211)
T PHA02518         75 SGYDYVVVDGAPQD--SELARAALRIADMVLIPVQPS-PFDIWAAPDLVELIKARQE  128 (211)
T ss_pred             ccCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCC-hhhHHHHHHHHHHHHHHHh
Confidence            45788999999863  344566677899999987665 33333   44445554443

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

Probab=93.10  E-value=0.04  Score=34.45  Aligned_cols=12  Identities=25%  Similarity=0.454  Sum_probs=9.8

Q ss_pred             eEEEEEEEeCCC
Q psy16649         17 HNFHINYRDTAG   28 (83)
Q Consensus        17 ~~~~l~i~Dt~g   28 (83)
                      ..++|.++||+|
T Consensus        61 ~~l~LtiiDTpG   72 (281)
T PF00735_consen   61 VKLNLTIIDTPG   72 (281)
T ss_dssp             EEEEEEEEEEC-
T ss_pred             cceEEEEEeCCC
Confidence            678899999998

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=93.02  E-value=0.73  Score=24.39  Aligned_cols=61  Identities=16%  Similarity=0.060  Sum_probs=41.0

Q ss_pred             EEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCC-CceEEEEeC
Q psy16649         20 HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASA-NVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~-~~piilvgN   83 (83)
                      .+.|.|+++...  ......+..+|.++++.+. +..++..+..+.+.+++...+ ...+.+|.|
T Consensus        44 D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvN  105 (106)
T cd03111          44 DYVVVDLGRSLD--EVSLAALDQADRVFLVTQQ-DLPSIRNAKRLLELLRVLDYSLPAKIELVLN  105 (106)
T ss_pred             CEEEEeCCCCcC--HHHHHHHHHcCeEEEEecC-ChHHHHHHHHHHHHHHHcCCCCcCceEEEec
Confidence            567899987543  2334466788998888754 567778888888877765433 345556655

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=93.02  E-value=0.026  Score=32.71  Aligned_cols=14  Identities=14%  Similarity=0.076  Sum_probs=11.3

Q ss_pred             CCcceeeeeeccCc
Q psy16649          1 SGENLCTLQIFRGC   14 (83)
Q Consensus         1 ~GKss~~~~~~~~~   14 (83)
                      +||||++.++....
T Consensus       128 vGKSslin~l~~~~  141 (172)
T cd04178         128 VGKSSLINSLKRSR  141 (172)
T ss_pred             CCHHHHHHHHhCcc
Confidence            69999999987643

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

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=92.88  E-value=0.17  Score=30.47  Aligned_cols=31  Identities=23%  Similarity=0.387  Sum_probs=24.3

Q ss_pred             CCcceeeeeeccC--ccc----------------------eEEEEEEEeCCCchh
Q psy16649          1 SGENLCTLQIFRG--CFQ----------------------HNFHINYRDTAGQER   31 (83)
Q Consensus         1 ~GKss~~~~~~~~--~~~----------------------~~~~l~i~Dt~g~~~   31 (83)
                      +|||++++++...  .|.                      ....+.+.||.|...
T Consensus        18 sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~   72 (224)
T cd01851          18 SGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDG   72 (224)
T ss_pred             CCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCc
Confidence            6999999998887  554                      136788999999653

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01858 NGP_1 NGP-1

Probab=92.65  E-value=0.26  Score=27.74  Aligned_cols=16  Identities=13%  Similarity=0.148  Sum_probs=10.5

Q ss_pred             ccCCcEEEEEEECCCh
Q psy16649         40 YRGAMGIMLVYDITNE   55 (83)
Q Consensus        40 ~~~~~~~ilv~d~~~~   55 (83)
                      ++.+|.+++|.|..++
T Consensus         6 l~~aD~il~VvD~~~p   21 (157)
T cd01858           6 IDSSDVVIQVLDARDP   21 (157)
T ss_pred             hhhCCEEEEEEECCCC
Confidence            4466777777776665

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.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=92.64  E-value=0.41  Score=25.60  Aligned_cols=14  Identities=14%  Similarity=0.119  Sum_probs=11.3

Q ss_pred             CCcceeeeeeccCc
Q psy16649          1 SGENLCTLQIFRGC   14 (83)
Q Consensus         1 ~GKss~~~~~~~~~   14 (83)
                      +|||++...+...-
T Consensus        30 ~GKT~l~~~i~~~~   43 (151)
T cd00009          30 TGKTTLARAIANEL   43 (151)
T ss_pred             CCHHHHHHHHHHHh
Confidence            69999998887654

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>cd01394 radB RadB

Probab=92.50  E-value=0.24  Score=29.39  Aligned_cols=55  Identities=24%  Similarity=0.332  Sum_probs=28.8

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCCc--hhhhcchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAGQ--ERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g~--~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ||||++..++.........+.-..|+-+.  ++...+..........-+++++..+.
T Consensus        30 sGKT~l~~~~a~~~~~~g~~v~yi~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (218)
T cd01394          30 TGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRPERAASSIIVFEPMDF   86 (218)
T ss_pred             CCHHHHHHHHHHHHHhcCCeEEEEECCCCCHHHHHHHHhHChHhhhcCEEEEeCCCH
Confidence            79999999987654333344556676442  33333322211112223556776543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>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=92.24  E-value=0.6  Score=25.25  Aligned_cols=40  Identities=15%  Similarity=0.120  Sum_probs=26.2

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++..-+++|.. .+..+.....+++++... .++|++|+++
T Consensus        36 ~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~-~~iPVFl~~~   75 (115)
T PF03709_consen   36 FTDIAAVVISWD-GEEEDEAQELLDKIRERN-FGIPVFLLAE   75 (115)
T ss_dssp             TTTEEEEEEECH-HHHHHHHHHHHHHHHHHS-TT-EEEEEES
T ss_pred             CCCeeEEEEEcc-cccchhHHHHHHHHHHhC-CCCCEEEEec
Confidence            344444444444 666666778888888776 7999999864

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.

>KOG4273|consensus

Probab=92.19  E-value=0.16  Score=31.87  Aligned_cols=27  Identities=15%  Similarity=0.640  Sum_probs=23.4

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHH
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNI   68 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~   68 (83)
                      ...+++.+||++....+..++.|+...
T Consensus        78 pl~a~vmvfdlse~s~l~alqdwl~ht  104 (418)
T KOG4273|consen   78 PLQAFVMVFDLSEKSGLDALQDWLPHT  104 (418)
T ss_pred             ceeeEEEEEeccchhhhHHHHhhcccc
Confidence            457899999999999999999998743

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=92.08  E-value=0.044  Score=34.20  Aligned_cols=29  Identities=14%  Similarity=0.115  Sum_probs=20.6

Q ss_pred             CCcceeeeeeccCccc------------e----EEEEEEEeCCCc
Q psy16649          1 SGENLCTLQIFRGCFQ------------H----NFHINYRDTAGQ   29 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------~----~~~l~i~Dt~g~   29 (83)
                      +||||++..+......            +    .-.+.++||+|-
T Consensus       132 vGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPGi  176 (287)
T PRK09563        132 VGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGKGLELLDTPGI  176 (287)
T ss_pred             CCHHHHHHHHhcCCccccCCCCCeEEEEEEEEeCCcEEEEECCCc
Confidence            6999999888654431            1    124789999996

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=91.99  E-value=0.99  Score=23.43  Aligned_cols=45  Identities=11%  Similarity=0.135  Sum_probs=31.0

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHH
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIR   66 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~   66 (83)
                      +.+.+.|+++...-  .....+..+|.++++.+. +..++..+.++++
T Consensus        40 ~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~~-~~~s~~~~~~~~~   84 (104)
T cd02042          40 YDYIIIDTPPSLGL--LTRNALAAADLVLIPVQP-SPLDLDGLEKLLE   84 (104)
T ss_pred             CCEEEEeCcCCCCH--HHHHHHHHCCEEEEeccC-CHHHHHHHHHHHH
Confidence            55678898875422  223566778999988865 5677777777766

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>COG1161 Predicted GTPases [General function prediction only]

Probab=91.76  E-value=0.039  Score=35.08  Aligned_cols=29  Identities=17%  Similarity=0.112  Sum_probs=21.3

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCc
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQ   29 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~   29 (83)
                      +||||+++++....-.                -.-.+.++||+|-
T Consensus       143 VGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~~~i~LlDtPGi  187 (322)
T COG1161         143 VGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLDDGIYLLDTPGI  187 (322)
T ss_pred             CcHHHHHHHHhcccceeeCCCCceecceEEEEcCCCeEEecCCCc
Confidence            6999999998765542                2234788999994

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=91.76  E-value=0.91  Score=24.72  Aligned_cols=40  Identities=13%  Similarity=-0.026  Sum_probs=28.7

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++++.+  +.++..+.+.++.+.+.+++...+++++++-|+
T Consensus        50 ~~d~V~i--S~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~   89 (122)
T cd02071          50 DVDVIGL--SSLSGGHMTLFPEVIELLRELGAGDILVVGGGI   89 (122)
T ss_pred             CCCEEEE--cccchhhHHHHHHHHHHHHhcCCCCCEEEEECC
Confidence            5565555  455678888899999999887545777776653

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=91.55  E-value=0.37  Score=27.12  Aligned_cols=26  Identities=12%  Similarity=0.443  Sum_probs=11.8

Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHh
Q psy16649         46 IMLVYDITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        46 ~ilv~d~~~~~s~~~~~~w~~~~~~~   71 (83)
                      +++++.-.|.-.-+.+..|+..+.+.
T Consensus        32 ~IiVlNK~Dl~~~~~~~~~~~~~~~~   57 (155)
T cd01849          32 LILVLNKADLVPKEVLRKWLAYLRHS   57 (155)
T ss_pred             EEEEEechhcCCHHHHHHHHHHHHhh
Confidence            44555433332223455676555443

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.

>smart00053 DYNc Dynamin, GTPase

Probab=91.22  E-value=1.6  Score=26.81  Aligned_cols=63  Identities=6%  Similarity=0.104  Sum_probs=35.0

Q ss_pred             EEEEEEEeCCCchh-------------hhcchhhhccCC-cEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQER-------------FRTITTAYYRGA-MGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~-------------~~~~~~~~~~~~-~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...|.+.||+|-..             ...+...|+++. +.+++|.|.+..-+=+...+..+.+   .+...|+++|.|
T Consensus       124 ~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~l---d~~~~rti~ViT  200 (240)
T smart00053      124 VLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEV---DPQGERTIGVIT  200 (240)
T ss_pred             CCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHH---HHcCCcEEEEEE
Confidence            36788999999631             234667788854 5777777765421111112222222   234566666654

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=90.79  E-value=0.44  Score=28.03  Aligned_cols=56  Identities=21%  Similarity=0.352  Sum_probs=30.6

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCC--chhhhcchhhhccCCcEEEEEEECCChh
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAG--QERFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g--~~~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      ||||++..++..+......+.-..|+-+  .++...+...+......=+++++..+..
T Consensus        23 sGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~~~~~~~~~~~~~i~~~~~~~~~   80 (209)
T TIGR02237        23 SGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPERALSNFIVFEVFDFD   80 (209)
T ss_pred             CCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHHHHHhChHHHhcCEEEEECCCHH
Confidence            7999999998765433344566778864  3344443332222211224556665443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=90.76  E-value=1.1  Score=26.58  Aligned_cols=28  Identities=29%  Similarity=0.268  Sum_probs=18.3

Q ss_pred             CCcceeeeeeccCccceE------EEEEEEeCCC
Q psy16649          1 SGENLCTLQIFRGCFQHN------FHINYRDTAG   28 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~------~~l~i~Dt~g   28 (83)
                      ||||++..++........      ...-..|+.+
T Consensus        30 sGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          30 SGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             CChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            799999998865532222      4555667765

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>KOG1486|consensus

Probab=90.71  E-value=0.35  Score=30.45  Aligned_cols=68  Identities=18%  Similarity=0.130  Sum_probs=43.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh-------cchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR-------TITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~-------~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||+++..+....-.                  +..++|+.|.+|--.-.       ...-.--+.||.++.|.|.+..
T Consensus        73 VGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~ga~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk~  152 (364)
T KOG1486|consen   73 VGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNGANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATKS  152 (364)
T ss_pred             ccHHHHHHHhhcchhhhhceeeeEEEeecceEEecCceEEEecCcccccccccCCCCCceEEEEeecccEEEEEecCCcc
Confidence            4888888776654433                  55689999998732211       1112345679999999999987


Q ss_pred             hHHHH-HHHHHHHH
Q psy16649         56 KSFDN-IKNWIRNI   68 (83)
Q Consensus        56 ~s~~~-~~~w~~~~   68 (83)
                      +--.+ +++-++.+
T Consensus       153 e~qr~~le~ELe~v  166 (364)
T KOG1486|consen  153 EDQREILEKELEAV  166 (364)
T ss_pred             hhHHHHHHHHHHHh
Confidence            76543 34444444

>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein

Probab=90.22  E-value=0.93  Score=25.24  Aligned_cols=39  Identities=21%  Similarity=0.461  Sum_probs=31.4

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcC--CCceEEE
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENAS--ANVEKML   80 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~--~~~piil   80 (83)
                      +-|+.|+...++...+=..+..|+..+++.++  ..+|++.
T Consensus        83 q~dGti~Amc~tg~~~~~sL~~WI~~Lq~~NP~L~~ipV~F  123 (126)
T PF14784_consen   83 QEDGTIFAMCMTGTSDKDSLLSWIRGLQETNPNLAQIPVLF  123 (126)
T ss_pred             eccceEEEEEeccCCCHHHHHHHHHHHHhhCCchhcceEEE
Confidence            45788888888888888889999999998664  5788765

>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]

Probab=90.11  E-value=1.4  Score=27.29  Aligned_cols=44  Identities=11%  Similarity=0.143  Sum_probs=36.1

Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         40 YRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        40 ~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      --.+|.++..|..-++..=+.+.+-++.++++.+++.|+.+|=|
T Consensus       152 AA~adfVi~~YNP~s~~R~~~~~~a~eil~~~r~~~tpVgivrn  195 (249)
T COG1010         152 AAEADFVIALYNPISKRRPEQLGRAFEILREHRSPDTPVGIVRN  195 (249)
T ss_pred             HhhCCEEEEEECCccccchHHHHHHHHHHHHhcCCCCcEEEEec
Confidence            34689999999888887777778888888888888999998754

>KOG0461|consensus

Probab=89.91  E-value=0.27  Score=32.26  Aligned_cols=35  Identities=20%  Similarity=0.356  Sum_probs=20.6

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCC---cEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGA---MGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~---~~~ilv~d~~~   54 (83)
                      ++..+.+.|++|+...   .+..+.+|   |..++|.|+..
T Consensus        68 e~lq~tlvDCPGHasL---IRtiiggaqiiDlm~lviDv~k  105 (522)
T KOG0461|consen   68 EQLQFTLVDCPGHASL---IRTIIGGAQIIDLMILVIDVQK  105 (522)
T ss_pred             ccceeEEEeCCCcHHH---HHHHHhhhheeeeeeEEEehhc
Confidence            6677788999998653   22223332   34456666654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=89.77  E-value=0.27  Score=30.40  Aligned_cols=51  Identities=6%  Similarity=0.169  Sum_probs=26.6

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCCc--hhhhcchhhhccCCcEEEEEE-ECC
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAGQ--ERFRTITTAYYRGAMGIMLVY-DIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g~--~~~~~~~~~~~~~~~~~ilv~-d~~   53 (83)
                      |||||++..+......+.  |.+......  .....+....-....-+|+.+ |++
T Consensus        63 tGKSSlVkall~~y~~~G--LRlIev~k~~L~~l~~l~~~l~~~~~kFIlf~DDLs  116 (249)
T PF05673_consen   63 TGKSSLVKALLNEYADQG--LRLIEVSKEDLGDLPELLDLLRDRPYKFILFCDDLS  116 (249)
T ss_pred             CCHHHHHHHHHHHHhhcC--ceEEEECHHHhccHHHHHHHHhcCCCCEEEEecCCC
Confidence            799999998776553333  445554432  233344333333334455544 443

>PRK13796 GTPase YqeH; Provisional

Probab=89.05  E-value=0.92  Score=29.45  Aligned_cols=48  Identities=21%  Similarity=0.324  Sum_probs=27.0

Q ss_pred             hhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         30 ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        30 ~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.|.......-...+.+++|.|+.+..     ..|.+++.+.. .+.|+++|+|
T Consensus        57 ~~~~~~l~~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViN  104 (365)
T PRK13796         57 DDFLKLLNGIGDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGN  104 (365)
T ss_pred             HHHHHHHHhhcccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEE
Confidence            345444333322333777888877643     34566666554 3567777776

>KOG1491|consensus

Probab=89.04  E-value=0.38  Score=31.30  Aligned_cols=37  Identities=16%  Similarity=0.026  Sum_probs=24.8

Q ss_pred             eEEEEEEEeCCCchhh----hcc---hhhhccCCcEEEEEEECC
Q psy16649         17 HNFHINYRDTAGQERF----RTI---TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~----~~~---~~~~~~~~~~~ilv~d~~   53 (83)
                      .+..|++.|+||--+-    ..+   --..+|.+|+++-|.+..
T Consensus        82 vpa~l~v~DIAGLvkGAs~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   82 VPAFLTVYDIAGLVKGASAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             eeeeEEEEeecccccCcccCcCchHHHHHhhhhccceeEEEEec
Confidence            6788999999984332    222   344567899988766544

>KOG1490|consensus

Probab=88.76  E-value=0.81  Score=31.41  Aligned_cols=80  Identities=20%  Similarity=0.165  Sum_probs=44.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhh----hcchh-------hhccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERF----RTITT-------AYYRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~----~~~~~-------~~~~~~~~~ilv~d   51 (83)
                      +||||+..........                  +-...|+.||+|--+.    +....       ..++  .+++++-|
T Consensus       179 VGKSSf~~~vtradvevqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLr--aaVLYfmD  256 (620)
T KOG1490|consen  179 VGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLR--SAVLYFMD  256 (620)
T ss_pred             CCcHhhcccccccccccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhh--hhheeeee
Confidence            4888877765554433                  4457788899984221    11111       1222  35778889


Q ss_pred             CCChh--HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         52 ITNEK--SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        52 ~~~~~--s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..-  |..+=-++++.++... .+-|.|+|.|
T Consensus       257 LSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlN  289 (620)
T KOG1490|consen  257 LSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLN  289 (620)
T ss_pred             chhhhCCCHHHHHHHHHHhHHHh-cCCceEEEee
Confidence            98753  3333234555555544 4556666654

>KOG0469|consensus

Probab=88.39  E-value=0.36  Score=33.22  Aligned_cols=38  Identities=32%  Similarity=0.428  Sum_probs=33.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ..+-+++.|.+|+-.|.+-...-++-.|+.++|.|.-+
T Consensus        96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~  133 (842)
T KOG0469|consen   96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVS  133 (842)
T ss_pred             cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccC
Confidence            56889999999999999888888999999999998765

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=88.09  E-value=1.8  Score=26.87  Aligned_cols=43  Identities=26%  Similarity=0.358  Sum_probs=30.0

Q ss_pred             eEEEEEEEeC-CCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHH
Q psy16649         17 HNFHINYRDT-AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN   63 (83)
Q Consensus        17 ~~~~l~i~Dt-~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~   63 (83)
                      ....+-+.|| ||-|.|..   .-.+++|.+|.|.|.+ .+|+...++
T Consensus       132 ~~~e~VivDtEAGiEHfgR---g~~~~vD~vivVvDpS-~~sl~taer  175 (255)
T COG3640         132 NRYEVVIVDTEAGIEHFGR---GTIEGVDLVIVVVDPS-YKSLRTAER  175 (255)
T ss_pred             ccCcEEEEecccchhhhcc---ccccCCCEEEEEeCCc-HHHHHHHHH
Confidence            4467788998 78887743   3356899999999986 445444443

>cd01856 YlqF YlqF

Probab=87.89  E-value=0.59  Score=26.74  Aligned_cols=26  Identities=8%  Similarity=-0.161  Sum_probs=16.2

Q ss_pred             hhhcchhhhccCCcEEEEEEECCChh
Q psy16649         31 RFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus        31 ~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      +..........+||.+++|+|.+++.
T Consensus         8 ~~~~~~~~~i~~aD~il~v~D~~~~~   33 (171)
T cd01856           8 KALRQIKEKLKLVDLVIEVRDARIPL   33 (171)
T ss_pred             HHHHHHHHHHhhCCEEEEEeeccCcc
Confidence            33344455666777777777776553

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.

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=86.21  E-value=0.44  Score=28.00  Aligned_cols=29  Identities=14%  Similarity=0.181  Sum_probs=21.2

Q ss_pred             CCcceeeeeeccCccc----eEEEEEEEeCCCc
Q psy16649          1 SGENLCTLQIFRGCFQ----HNFHINYRDTAGQ   29 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----~~~~l~i~Dt~g~   29 (83)
                      ||||+++..+...-..    ..+.+.+.|..|.
T Consensus        49 sGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~~   81 (205)
T PF01580_consen   49 SGKSTLLRTLLLSLALTYSPDDVQLYIIDPKGS   81 (205)
T ss_dssp             SSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSS
T ss_pred             CCccHHHHHHHHHHHHHhcCCccEEEEEcCCcc
Confidence            7999988875544333    7799999999876

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=86.00  E-value=3.1  Score=23.30  Aligned_cols=40  Identities=13%  Similarity=0.051  Sum_probs=28.1

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++++.+  +.....+...++++++++++...+++++++-|+
T Consensus        54 ~~d~V~l--S~~~~~~~~~~~~~~~~L~~~~~~~~~i~vGG~   93 (137)
T PRK02261         54 DADAILV--SSLYGHGEIDCRGLREKCIEAGLGDILLYVGGN   93 (137)
T ss_pred             CCCEEEE--cCccccCHHHHHHHHHHHHhcCCCCCeEEEECC
Confidence            4555444  555557788889999999887556787777664

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=85.66  E-value=3.2  Score=24.78  Aligned_cols=13  Identities=23%  Similarity=0.133  Sum_probs=10.7

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      ||||++..++...
T Consensus        30 sGKT~l~~~l~~~   42 (235)
T cd01123          30 SGKTQLCHQLAVT   42 (235)
T ss_pred             CCHHHHHHHHHHH
Confidence            7999999998643

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>KOG1143|consensus

Probab=85.54  E-value=8.9  Score=25.85  Aligned_cols=19  Identities=16%  Similarity=0.426  Sum_probs=14.2

Q ss_pred             eEEEEEEEeCCCchhhhcc
Q psy16649         17 HNFHINYRDTAGQERFRTI   35 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~   35 (83)
                      ..-.+.+.|.+|+.+|...
T Consensus       247 SSKlvTfiDLAGh~kY~~T  265 (591)
T KOG1143|consen  247 SSKLVTFIDLAGHAKYQKT  265 (591)
T ss_pred             hcceEEEeecccchhhhee
Confidence            3446778999999998653

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=85.52  E-value=0.22  Score=28.81  Aligned_cols=14  Identities=7%  Similarity=0.095  Sum_probs=11.6

Q ss_pred             CCcceeeeeeccCc
Q psy16649          1 SGENLCTLQIFRGC   14 (83)
Q Consensus         1 ~GKss~~~~~~~~~   14 (83)
                      +|||||++.+....
T Consensus        46 vGKSSLiN~L~~~~   59 (161)
T PF03193_consen   46 VGKSSLINALLPEA   59 (161)
T ss_dssp             SSHHHHHHHHHTSS
T ss_pred             CCHHHHHHHHHhhc
Confidence            69999999987763

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK04195 replication factor C large subunit; Provisional

Probab=85.48  E-value=2.1  Score=28.80  Aligned_cols=25  Identities=12%  Similarity=0.045  Sum_probs=14.7

Q ss_pred             CCcceeeeeeccCccceEEEEEEEe
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRD   25 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~D   25 (83)
                      +|||++...+....--..+.++.-|
T Consensus        50 ~GKTtla~ala~el~~~~ielnasd   74 (482)
T PRK04195         50 VGKTSLAHALANDYGWEVIELNASD   74 (482)
T ss_pred             CCHHHHHHHHHHHcCCCEEEEcccc
Confidence            6999999887654322333443333

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=85.31  E-value=0.98  Score=29.59  Aligned_cols=37  Identities=16%  Similarity=0.106  Sum_probs=25.6

Q ss_pred             eEEEEEEEeCCCchh----hhcc---hhhhccCCcEEEEEEECC
Q psy16649         17 HNFHINYRDTAGQER----FRTI---TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~----~~~~---~~~~~~~~~~~ilv~d~~   53 (83)
                      ....+++.|.+|--.    -+.+   --..+|.+|+++-|.|..
T Consensus        65 ~~~~ve~vDIAGLV~GAs~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          65 RPAPVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             EeeeeEEEEecccCCCcccCCCcchHHHHhhhhcCeEEEEEEec
Confidence            557789999987422    2223   334567899999988776

>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]

Probab=85.03  E-value=2.5  Score=21.42  Aligned_cols=37  Identities=11%  Similarity=0.354  Sum_probs=26.8

Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEE
Q psy16649         44 MGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL   81 (83)
Q Consensus        44 ~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilv   81 (83)
                      .++++.|.+.+.++-+.....++.+++..+.. |.+++
T Consensus        25 ~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~-p~~ii   61 (93)
T PF10551_consen   25 RGFPVAFALVSSESEESYEWFLEKLKEAMPQK-PKVII   61 (93)
T ss_pred             CEEEEEEEEEcCCChhhhHHHHHHhhhccccC-ceeee
Confidence            56788888888888888877777777665444 66654

This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].

>COG1660 Predicted P-loop-containing kinase [General function prediction only]

Probab=84.82  E-value=4  Score=25.79  Aligned_cols=30  Identities=13%  Similarity=0.420  Sum_probs=26.1

Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhc
Q psy16649         43 AMGIMLVYDITNEKSFDNIKNWIRNIEENA   72 (83)
Q Consensus        43 ~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~   72 (83)
                      -+-+-++.|+.+++.|.++..++.++++..
T Consensus        51 ~~kvAv~iDiRs~~~~~~l~~~l~~l~~~~   80 (286)
T COG1660          51 ITKVAVVIDVRSREFFGDLEEVLDELKDNG   80 (286)
T ss_pred             CceEEEEEecccchhHHHHHHHHHHHHhcC
Confidence            356778899999999999999999998764

>KOG0463|consensus

Probab=84.68  E-value=9.9  Score=25.67  Aligned_cols=15  Identities=33%  Similarity=0.625  Sum_probs=12.3

Q ss_pred             EEEEEeCCCchhhhc
Q psy16649         20 HINYRDTAGQERFRT   34 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~   34 (83)
                      -+.+.|.+|+|+|-.
T Consensus       220 viTFIDLAGHEkYLK  234 (641)
T KOG0463|consen  220 VITFIDLAGHEKYLK  234 (641)
T ss_pred             eEEEEeccchhhhhh
Confidence            467889999999954

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=84.62  E-value=0.26  Score=26.40  Aligned_cols=14  Identities=7%  Similarity=0.043  Sum_probs=11.4

Q ss_pred             CCcceeeeeeccCc
Q psy16649          1 SGENLCTLQIFRGC   14 (83)
Q Consensus         1 ~GKss~~~~~~~~~   14 (83)
                      ||||+++..+...-
T Consensus         9 ~GKT~l~~~la~~l   22 (132)
T PF00004_consen    9 TGKTTLARALAQYL   22 (132)
T ss_dssp             SSHHHHHHHHHHHT
T ss_pred             CCeeHHHHHHHhhc
Confidence            79999999887663

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=83.96  E-value=0.3  Score=31.63  Aligned_cols=27  Identities=22%  Similarity=0.021  Sum_probs=22.1

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCC
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTA   27 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~   27 (83)
                      |||||+++.+..-.....--+.||||+
T Consensus       184 SGKTTlLNal~~~i~~~eRvItiEDta  210 (355)
T COG4962         184 SGKTTLLNALSGFIDSDERVITIEDTA  210 (355)
T ss_pred             CCHHHHHHHHHhcCCCcccEEEEeehh
Confidence            799999999877666666778899986

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.79  E-value=5.7  Score=30.09  Aligned_cols=43  Identities=16%  Similarity=0.291  Sum_probs=28.3

Q ss_pred             cCCcEEEEEEECCChhH---------HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         41 RGAMGIMLVYDITNEKS---------FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        41 ~~~~~~ilv~d~~~~~s---------~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+|+|+..|+.+.-+         ...++.=++++++...-.+|+.|+.|
T Consensus       213 ~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lT  264 (1188)
T COG3523         213 RPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLT  264 (1188)
T ss_pred             CCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEe
Confidence            35899999999876421         11233345566666667899998875

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=83.75  E-value=5.5  Score=26.83  Aligned_cols=33  Identities=21%  Similarity=0.191  Sum_probs=20.6

Q ss_pred             EEEEEeCCCchhhhc--chhhhccCCcEEEEEEEC
Q psy16649         20 HINYRDTAGQERFRT--ITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~--~~~~~~~~~~~~ilv~d~   52 (83)
                      -+.+.||.|+|+|-.  ++...-.+.|..+++...
T Consensus       202 lVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaA  236 (527)
T COG5258         202 LVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAA  236 (527)
T ss_pred             EEEEEecCCccHHHHHHHHHHhccccceEEEEEEc
Confidence            456789999999843  444444555555554433

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=83.57  E-value=0.63  Score=27.57  Aligned_cols=26  Identities=12%  Similarity=-0.017  Sum_probs=14.9

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeC
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDT   26 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt   26 (83)
                      ||||++...+..........+...+.
T Consensus        49 ~GKT~la~~~~~~~~~~~~~~~~i~~   74 (226)
T TIGR03420        49 SGKSHLLQAACAAAEERGKSAIYLPL   74 (226)
T ss_pred             CCHHHHHHHHHHHHHhcCCcEEEEeH
Confidence            79999998876543222223334443

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>COG4615 PvdE ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]

Probab=83.55  E-value=0.26  Score=32.95  Aligned_cols=70  Identities=14%  Similarity=0.157  Sum_probs=45.0

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeC----CCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDT----AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE   70 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt----~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~   70 (83)
                      ||||++++-+..-.-++.-.+.+=|.    -..|+|+.+...-+.+-+-+==.+......|-+.+..|++.+.-
T Consensus       360 sGKST~~~LLtGL~~PqsG~I~ldg~pV~~e~ledYR~LfSavFsDyhLF~~ll~~e~~as~q~i~~~LqrLel  433 (546)
T COG4615         360 SGKSTLAMLLTGLYQPQSGEILLDGKPVSAEQLEDYRKLFSAVFSDYHLFDQLLGPEGKASPQLIEKWLQRLEL  433 (546)
T ss_pred             CcHHHHHHHHhcccCCCCCceeECCccCCCCCHHHHHHHHHHHhhhHhhhHhhhCCccCCChHHHHHHHHHHHH
Confidence            79999887665444343333333222    23578988887777766555444455556778889999887743

>KOG0410|consensus

Probab=83.27  E-value=1.5  Score=28.65  Aligned_cols=62  Identities=15%  Similarity=0.142  Sum_probs=38.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh-hh-cc------hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER-FR-TI------TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~-~~-~~------~~~~~~~~~~~ilv~d~~   53 (83)
                      ||||+|+.++..-...                   ..-.+-+-||.|-=. .+ .+      +-.-...+|.++-|-|++
T Consensus       189 aGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFisdLP~~LvaAF~ATLeeVaeadlllHvvDiS  268 (410)
T KOG0410|consen  189 AGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFISDLPIQLVAAFQATLEEVAEADLLLHVVDIS  268 (410)
T ss_pred             ccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCcEEEEeechhhhhhCcHHHHHHHHHHHHHHhhcceEEEEeecC
Confidence            7999999987632221                   334555678887311 11 11      122345799999999999


Q ss_pred             ChhHHHHHH
Q psy16649         54 NEKSFDNIK   62 (83)
Q Consensus        54 ~~~s~~~~~   62 (83)
                      .++--+...
T Consensus       269 hP~ae~q~e  277 (410)
T KOG0410|consen  269 HPNAEEQRE  277 (410)
T ss_pred             CccHHHHHH
Confidence            986544433

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=83.18  E-value=0.2  Score=28.93  Aligned_cols=32  Identities=16%  Similarity=0.350  Sum_probs=19.8

Q ss_pred             CCcceeeeeeccCccceEEEEEE---------EeCCCchhh
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINY---------RDTAGQERF   32 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i---------~Dt~g~~~~   32 (83)
                      |||||++.++...--.+.+++..         .|+.|.+.|
T Consensus        13 SGKTTLie~lv~~L~~~G~rVa~iKH~hh~~~~D~~GkDs~   53 (161)
T COG1763          13 SGKTTLIEKLVRKLKARGYRVATVKHAHHDFDLDKPGKDTY   53 (161)
T ss_pred             CChhhHHHHHHHHHHhCCcEEEEEEecCCCCCCCCCCCccc
Confidence            79999999985533223333333         467776655

>KOG0780|consensus

Probab=82.97  E-value=4.1  Score=27.35  Aligned_cols=50  Identities=18%  Similarity=0.298  Sum_probs=29.8

Q ss_pred             eEEEEEEEeCCCchh-----hhcchh-hhccCCcEEEEEEECCChhH-HHHHHHHHH
Q psy16649         17 HNFHINYRDTAGQER-----FRTITT-AYYRGAMGIMLVYDITNEKS-FDNIKNWIR   66 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~-----~~~~~~-~~~~~~~~~ilv~d~~~~~s-~~~~~~w~~   66 (83)
                      +++.+.|.||+|...     |..+.. .-.-+.|-+|+|-|.+--+. +...+.+-+
T Consensus       182 e~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aFk~  238 (483)
T KOG0780|consen  182 ENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKE  238 (483)
T ss_pred             cCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHHHH
Confidence            778999999999432     222221 11224678888888765443 444444433

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=82.46  E-value=2.3  Score=25.33  Aligned_cols=27  Identities=26%  Similarity=0.271  Sum_probs=18.1

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCC
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTA   27 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~   27 (83)
                      +|||++..++..+......+.-+.|+-
T Consensus        34 sGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         34 SGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            699999999876443333445566766

>KOG2655|consensus

Probab=82.15  E-value=0.6  Score=30.49  Aligned_cols=13  Identities=23%  Similarity=0.342  Sum_probs=10.9

Q ss_pred             eEEEEEEEeCCCc
Q psy16649         17 HNFHINYRDTAGQ   29 (83)
Q Consensus        17 ~~~~l~i~Dt~g~   29 (83)
                      ..++|.+.||+|-
T Consensus        77 ~~l~LtvidtPGf   89 (366)
T KOG2655|consen   77 VKLNLTVIDTPGF   89 (366)
T ss_pred             eEEeeEEeccCCC
Confidence            6788999999984

>PF12327 FtsZ_C: FtsZ family, C-terminal domain; InterPro: IPR024757 The FtsZ family of proteins are involved in polymer formation

Probab=81.89  E-value=5.7  Score=20.80  Aligned_cols=45  Identities=16%  Similarity=0.271  Sum_probs=32.7

Q ss_pred             chhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEE
Q psy16649         35 ITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKM   79 (83)
Q Consensus        35 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~pii   79 (83)
                      +....+++|.++++-+.....-++.++..-.+.++++.+++.-++
T Consensus        28 Ll~~~i~~A~~vLvni~~~~d~~l~ev~~~~~~i~~~~~~~a~ii   72 (95)
T PF12327_consen   28 LLDVDIKGAKGVLVNITGGPDLSLSEVNEAMEIIREKADPDANII   72 (95)
T ss_dssp             TSTS-GGG-SEEEEEEEE-TTS-HHHHHHHHHHHHHHSSTTSEEE
T ss_pred             cccCChHHhceEEEEEEcCCCCCHHHHHHHHHHHHHHhhcCceEE
Confidence            444678899999999988878899999999999988876655544

FtsZ is the polymer-forming protein of bacterial cell division. It is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ is a GTPase, like tubulin []. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria and archaea []. This entry represents a domain of FtsZ. In most FtsZ proteins is found in the C terminus, except in some alphaproteobacteria proteins where there is an extension C-terminal domain TIGR03483 from TIGRFAMs.; PDB: 2RHO_B 2RHJ_A 2VXY_A 2RHL_B 2RHH_A 2VAM_A 1W5F_B 2R75_1 2R6R_1 1RQ7_A ....

>TIGR00092 GTP-binding protein YchF

Probab=81.53  E-value=1.4  Score=28.87  Aligned_cols=35  Identities=20%  Similarity=-0.045  Sum_probs=23.9

Q ss_pred             EEEEEEeCCCchhh-------hcchhhhccCCcEEEEEEECC
Q psy16649         19 FHINYRDTAGQERF-------RTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~-------~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      ..+.+.|.+|--.-       ..-.-...+.+|+++.|.+..
T Consensus        67 a~i~~~DiaGlv~gAs~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        67 TTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             ceEEEEeccccccchhcccCcchHHHHHHHhCCEEEEEEeCC
Confidence            46788999984321       112334577899999999874

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>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=81.11  E-value=5.9  Score=22.74  Aligned_cols=38  Identities=13%  Similarity=0.239  Sum_probs=25.6

Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEe
Q psy16649         41 RGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLG   82 (83)
Q Consensus        41 ~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvg   82 (83)
                      ..+|.+|+.+-    .+=++++.++..+....+++.+++|||
T Consensus        68 ~~~D~vvly~P----KaK~e~~~lL~~l~~~L~~g~~i~vVG  105 (155)
T PF08468_consen   68 QDFDTVVLYWP----KAKAEAQYLLANLLSHLPPGTEIFVVG  105 (155)
T ss_dssp             TT-SEEEEE------SSHHHHHHHHHHHHTTS-TT-EEEEEE
T ss_pred             cCCCEEEEEcc----CcHHHHHHHHHHHHHhCCCCCEEEEEe
Confidence            35788888774    444567778888887777899999998

; GO: 0008990 rRNA (guanine-N2-)-methyltransferase activity, 0006364 rRNA processing; PDB: 2PJD_A.

>COG1162 Predicted GTPases [General function prediction only]

Probab=81.04  E-value=0.86  Score=29.02  Aligned_cols=13  Identities=8%  Similarity=0.110  Sum_probs=11.0

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      +|||||++++...
T Consensus       175 VGKSSLiN~L~p~  187 (301)
T COG1162         175 VGKSTLINALLPE  187 (301)
T ss_pred             CcHHHHHHhhCch
Confidence            5999999998763

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=80.69  E-value=3.2  Score=26.02  Aligned_cols=13  Identities=8%  Similarity=0.215  Sum_probs=10.0

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      +|||++...+...
T Consensus        54 ~GKT~la~~l~~~   66 (316)
T PHA02544         54 TGKTTVAKALCNE   66 (316)
T ss_pred             CCHHHHHHHHHHH
Confidence            6999998887553

>KOG2052|consensus

Probab=80.55  E-value=4.4  Score=27.59  Aligned_cols=41  Identities=20%  Similarity=0.379  Sum_probs=36.7

Q ss_pred             EEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649         20 HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .+++..+-|+.||...|.--+++-+.++=+|..+++.|+-+
T Consensus       212 qI~L~e~IGkGRyGEVwrG~wrGe~VAVKiF~srdE~SWfr  252 (513)
T KOG2052|consen  212 QIVLQEIIGKGRFGEVWRGRWRGEDVAVKIFSSRDERSWFR  252 (513)
T ss_pred             eeEEEEEecCccccceeeccccCCceEEEEecccchhhhhh
Confidence            56778899999999999999999999999999999999443

>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional

Probab=80.54  E-value=13  Score=24.07  Aligned_cols=64  Identities=16%  Similarity=0.122  Sum_probs=39.5

Q ss_pred             eEEEEEEEeCCCch-------hhhcc------hhh---hccCCcEEEEEEECCChh----HHHHHHHHHHHHHHhcCCCc
Q psy16649         17 HNFHINYRDTAGQE-------RFRTI------TTA---YYRGAMGIMLVYDITNEK----SFDNIKNWIRNIEENASANV   76 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~-------~~~~~------~~~---~~~~~~~~ilv~d~~~~~----s~~~~~~w~~~~~~~~~~~~   76 (83)
                      -.+-+.|||+.-.+       +|...      +..   ---++|.+-+....++++    +-+++....+.+.+.  .++
T Consensus        48 p~ia~~v~D~~~~~~~~~i~~~~~~v~~~p~~~Ak~q~~~~GAd~Idl~~~s~dp~~~d~~~~e~~~~Vk~V~ea--vd~  125 (319)
T PRK04452         48 PVIAMEVFDMPPEDWPEAVKEPFGDVMNDPAAWAKKCVEEYGADMITLHLISTDPNGKDKSPEEAAKTVEEVLQA--VDV  125 (319)
T ss_pred             CeEEEEEecCCCcccHHHHHHHHHHHhcCHHHHHHHHHHHhCCCEEEEECCCCCcccccchHHHHHHHHHHHHHh--CCC
Confidence            45899999996533       33332      111   134789998988777775    344455566666544  478


Q ss_pred             eEEEEe
Q psy16649         77 EKMLLG   82 (83)
Q Consensus        77 piilvg   82 (83)
                      |++|.|
T Consensus       126 PL~Id~  131 (319)
T PRK04452        126 PLIIGG  131 (319)
T ss_pred             CEEEec
Confidence            886653

>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily

Probab=80.23  E-value=8.7  Score=21.87  Aligned_cols=40  Identities=8%  Similarity=0.061  Sum_probs=28.0

Q ss_pred             CCcEEEEEEECCCh----hHHHHHHHHHHHHHHhcCCCceEEEEe
Q psy16649         42 GAMGIMLVYDITNE----KSFDNIKNWIRNIEENASANVEKMLLG   82 (83)
Q Consensus        42 ~~~~~ilv~d~~~~----~s~~~~~~w~~~~~~~~~~~~piilvg   82 (83)
                      +.+.+++++-.+|-    +-.+++...++.+++.. ++.|+++++
T Consensus        57 ~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~-p~~~iil~~  100 (177)
T cd01844          57 PADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETH-PDTPILLVS  100 (177)
T ss_pred             CCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHC-cCCCEEEEe
Confidence            67888888866654    23456677777777765 678888764

SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	83
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-27
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-27
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		6e-19
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		8e-19
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		8e-19
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		1e-18
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-18
4fmc_B	171	Espg-Rab1 Complex Length = 171		2e-18
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-18
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		2e-18
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-18
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		2e-18
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-18
4fmc_F	117	Espg-Rab1 Complex Length = 117		2e-18
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		4e-18
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		5e-18
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		6e-18
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		7e-18
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		7e-18
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		6e-17
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-16
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		2e-16
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-16
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		5e-16
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		6e-16
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		7e-16
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		1e-15
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		3e-15
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		5e-15
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		6e-15
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		8e-15
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-14
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-14
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-14
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		4e-14
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		4e-14
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		4e-14
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		4e-14
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		4e-14
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		8e-14
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		9e-14
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-13
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-13
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-13
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-13
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-13
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-13
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-13
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-13
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-13
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-13
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-13
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-13
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		2e-13
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		3e-13
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		6e-13
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		8e-13
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		8e-13
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		8e-13
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		9e-13
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		9e-13
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-12
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-12
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-12
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-12
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		4e-12
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		4e-12
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		5e-12
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		5e-12
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		6e-12
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		8e-12
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-11
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-11
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-11
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-11
2efc_B	181	Ara7-GdpATVPS9A Length = 181		5e-11
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		2e-10
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-10
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-10
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		2e-10
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-10
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		4e-10
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-09
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		3e-09
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		3e-09
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-09
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-08
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		1e-08
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-08
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-08
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		3e-08
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		5e-08
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-08
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		3e-07
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-07
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		3e-07
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-07
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		8e-07
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		8e-07
1vg1_A	185	Gdp-bound Rab7 Length = 185		1e-06
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		4e-06
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		6e-06
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-05
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-05
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		2e-05
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-05
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-05
1byu_A	216	Canine Gdp-Ran Length = 216		2e-05
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-05
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-05
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-05
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		3e-05
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		4e-05
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		6e-05
4q21_A	189	Molecular Switch For Signal Transduction: Structura		1e-04
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-04
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-04
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-04
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-04
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		1e-04
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-04
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		1e-04
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		1e-04
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-04
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-04
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-04
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		2e-04
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		2e-04
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		2e-04
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-04
1wq1_R	166	Ras-Rasgap Complex Length = 166		2e-04
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		2e-04
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-04
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-04
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-04
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-04
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-04
6q21_A	171	Molecular Switch For Signal Transduction: Structura		2e-04
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		2e-04
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-04
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		2e-04
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-04
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-04
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-04
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		2e-04
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-04
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-04
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		2e-04
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		3e-04
3icq_B	171	Karyopherin Nuclear State Length = 171		3e-04
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		3e-04
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		4e-04
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		5e-04
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		5e-04
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		6e-04
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		6e-04
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		7e-04
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		7e-04
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		8e-04
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		8e-04

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  117 bits (294), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 61  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 119

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  117 bits (294), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 59/59 (100%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 89.0 bits (219), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 39/59 (66%), Positives = 50/59 (84%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGI+LVYDIT+E++F NIK W + + E+A+   + +L+GN
Sbjct: 58  DTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGN 116

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 88.6 bits (218), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 38/59 (64%), Positives = 50/59 (84%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGI+LVYD+T+E++F NIK W + + E+A+   + +L+GN
Sbjct: 75  DTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGN 133

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 88.6 bits (218), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 38/59 (64%), Positives = 50/59 (84%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGI+LVYD+T+E++F NIK W + + E+A+   + +L+GN
Sbjct: 62  DTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGN 120

>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 = 87.8 bits (216), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 71  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 129

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 54  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 112

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 61  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 119

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 61  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 119

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 88  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 146

>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 = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 71  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 129

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 80  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 138

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 38/59 (64%), Positives = 49/59 (83%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+  SFDN+K WI+ I+  A  NV K+L+GN
Sbjct: 64  DTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGN 122

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 52/59 (88%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 53  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 111

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 38/59 (64%), Positives = 49/59 (83%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGA GI+LVYDIT+E++F NIK W + + E+A+   + +L+GN
Sbjct: 58  DTAGQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGN 116

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 85.9 bits (211), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 37/59 (62%), Positives = 49/59 (83%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGA GI+LVYD+T+E++F NIK W + + E+A+   + +L+GN
Sbjct: 58  DTAGQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGN 116

>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 = 85.5 bits (210), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 36/59 (61%), Positives = 51/59 (86%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++S+ N+K W++ I+  AS NV K+L+GN
Sbjct: 64  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGN 122

>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 = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 36/59 (61%), Positives = 51/59 (86%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++S+ N+K W++ I+  AS NV K+L+GN
Sbjct: 64  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGN 122

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 36/58 (62%), Positives = 51/58 (87%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLG 82
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+G
Sbjct: 63  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVG 120

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 82.4 bits (202), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 34/59 (57%), Positives = 49/59 (83%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDIT + SF+NI+ W++ + +NA +N+  +L+GN
Sbjct: 63  DTAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGN 121

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 80.9 bits (198), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 51/59 (86%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRG+ GI++VYD+T+++SF+ +K W++ I+  A++ V K+L+GN
Sbjct: 76  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGN 134

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 51/59 (86%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRG+ GI++VYD+T+++SF+ +K W++ I+  A++ V K+L+GN
Sbjct: 63  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGN 121

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 51/59 (86%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRG+ GI++VYD+T+++SF+ +K W++ I+  A++ V K+L+GN
Sbjct: 63  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGN 121

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 79.3 bits (194), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 35/59 (59%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T AYYR A  ++L+YD+TN+ SFDNI+ W+  I E A  +V  MLLGN
Sbjct: 66  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGN 124

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 79.0 bits (193), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 35/59 (59%), Positives = 48/59 (81%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 78  DTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGN 136

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 79.0 bits (193), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 35/59 (59%), Positives = 48/59 (81%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 60  DTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGN 118

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 48/59 (81%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF +IT+AYYR A GI+LVYDIT +++FD++  W++ I++ AS + E +L+GN
Sbjct: 81  DTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGN 139

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 35/74 (47%), Positives = 53/74 (71%), Gaps = 2/74 (2%)
Query: 12  RGCFQHNFHINYR--DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIE 69
           +  ++H+  I  +  DTAGQER+RTITTAYYRGAMG +L+YDI N++SF  +++W   I+
Sbjct: 62  KTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIK 121
Query: 70  ENASANVEKMLLGN 83
             +  N + +L+GN
Sbjct: 122 TYSWDNAQVILVGN 135

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 75.9 bits (185), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 47/59 (79%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 75  DTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 133

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 47/59 (79%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 84  DTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 75.1 bits (183), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 47/59 (79%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 60  DTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 118

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 32/59 (54%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G ++VYDI+   S++N  +W+  + ENA  NV   L+GN
Sbjct: 68  DTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGN 126

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+I  +Y+R A G++L+YD+T EKSF NI+ W+  IE+ A   V  ML+GN
Sbjct: 83  DTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGN 141

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/65 (47%), Positives = 51/65 (78%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAGQERFR++TTA++R AMG +L++D+T+++SF N++NW+  ++ NA   N + 
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 144
Query: 79  MLLGN 83
           +L+GN
Sbjct: 145 VLIGN 149

>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 = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+RTITTAYYRGA G +L YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 63  DTAGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGN 121

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 31/59 (52%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT +YYR A G +L YDIT   SF ++ +WI ++ + A +N+ ++L+GN
Sbjct: 84  DTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGN 142

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 33/65 (50%), Positives = 50/65 (76%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAG ERFR++TTA++R AMG +L++D+TNE+SF N++NWI  ++ +A S N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDI 130
Query: 79  MLLGN 83
           +L GN
Sbjct: 131 VLCGN 135

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 72.8 bits (177), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 46/59 (77%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 63  DTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 121

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 72.8 bits (177), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 46/59 (77%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 84  DTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 72.0 bits (175), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 47/59 (79%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE FR+IT +YYRGA G +LVYDIT  ++F+++ +W+ +  +++S+N+  ML+GN
Sbjct: 76  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGN 134

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 71.6 bits (174), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 32/59 (54%), Positives = 46/59 (77%), Gaps = 1/59 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT+ YYRG  G+++VYD+T+ +SF N+K W+  I +N   +V ++L+GN
Sbjct: 64  DTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGN 121

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 62  DTAGQERYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 120

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 62  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 120

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 31/59 (52%), Positives = 43/59 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G ++VYDI+   S++N  +W+  + ENA  NV   L+GN
Sbjct: 65  DTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGN 123

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 50/65 (76%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAG ERFR++TTA++R AMG +L++D+T+++SF N++NW+  ++ NA   N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 130
Query: 79  MLLGN 83
           +L+GN
Sbjct: 131 VLIGN 135

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 43/59 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+IT +YYR A  ++L YDIT E+SF  +  W+R IE+ AS  V  +L+GN
Sbjct: 81  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGN 139

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 50/65 (76%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAG ERFR++TTA++R AMG +L++D+T+++SF N++NW+  ++ NA   N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 130
Query: 79  MLLGN 83
           +L+GN
Sbjct: 131 VLIGN 135

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+   L+GN
Sbjct: 60  DTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGN 118

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+   L+GN
Sbjct: 66  DTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGN 124

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 69.3 bits (168), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE FR+IT +YYRGA G +LVYDIT   +F+++  W+ +  +++++N+  ML+GN
Sbjct: 65  DTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGN 123

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 68.9 bits (167), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LV+D+T  +++  ++ W++ + ++A A +  ML+GN
Sbjct: 65  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGN 123

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ ++++ + NW+ +    AS N+  +L GN
Sbjct: 66  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 124

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 45/59 (76%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LV+D+T  +++  ++ W++ + ++A A +  ML+GN
Sbjct: 80  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGN 138

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ ++++++  W+ +    AS N+  +L GN
Sbjct: 80  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGN 138

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 44/59 (74%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ ++++ + NW+ +    AS N+  +L GN
Sbjct: 65  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 123

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 43/67 (64%), Gaps = 2/67 (2%)
Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
           H F I   DTAGQERFR +   YYRG+   ++VYDIT E++F  +KNW+R + ++   ++
Sbjct: 54  HKFLI--WDTAGQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSI 111
Query: 77  EKMLLGN 83
              + GN
Sbjct: 112 VVAIAGN 118

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 40/59 (67%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 60  DTAGLERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 118

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 39/59 (66%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITN  +F   KNW++ ++  AS N+   L GN
Sbjct: 60  DTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGN 118

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 39/59 (66%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITN  +F   KNW++ ++  AS N+   L GN
Sbjct: 58  DTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGN 116

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 66.2 bits (160), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 47/65 (72%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAG ERFR++TTA++R A G +L +D+T+++SF N++NW   ++ NA   N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDI 130
Query: 79  MLLGN 83
           +L+GN
Sbjct: 131 VLIGN 135

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 66.2 bits (160), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 47/65 (72%), Gaps = 1/65 (1%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEK 78
           H+   DTAG ERFR++TTA++R A G +L +D+T+++SF N++NW   ++ NA   N + 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDI 130
Query: 79  MLLGN 83
           +L+GN
Sbjct: 131 VLIGN 135

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEKMLLGN 83
           DTAGQERFRT+T +YYRGA G++LVYD+T   +F  + NW+  +E   + N +   L+GN
Sbjct: 70  DTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGN 129

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 40/59 (67%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITN+++F   K W++ ++  AS ++   L GN
Sbjct: 63  DTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGN 121

>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 = 65.9 bits (159), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 29/59 (49%), Positives = 43/59 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR++T +YYRGA G +LVYDIT+ ++++ + NW+ +    AS N+  +L GN
Sbjct: 63  DTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 121

>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 = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 42/67 (62%), Gaps = 2/67 (2%)
Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
           H F I   DTAG ERFR +   YYRG+   ++VYDIT E++F  +KNW+R + ++   ++
Sbjct: 55  HKFLI--WDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSI 112
Query: 77  EKMLLGN 83
              + GN
Sbjct: 113 VVAIAGN 119

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 2/82 (2%)
Query: 2   GENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI 61
           G +  T  +  G   H F I   DTAGQERF ++   YYRG+   ++VYDIT + SF  +
Sbjct: 57  GASFMTKTVPCGNELHKFLI--WDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTL 114
Query: 62  KNWIRNIEENASANVEKMLLGN 83
           K W++ ++E+   N+   + GN
Sbjct: 115 KKWVKELKEHGPENIVMAIAGN 136

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 38/59 (64%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+ ++   YYRGA   ++VYDITN  +F   KNW++ ++  AS N+   L GN
Sbjct: 60  DTAGLERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGN 118

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 41/68 (60%)
Query: 16  QHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN 75
           +H       DTAGQERF ++   YYR A   ++VYD+T  +SF   ++W++ + E AS +
Sbjct: 49  EHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKD 108
Query: 76  VEKMLLGN 83
           +   L+GN
Sbjct: 109 IIIALVGN 116

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 41/59 (69%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR +T +YYRGA G ++VYDIT   +++++ +W+ +     + N   +L+GN
Sbjct: 70  DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGN 128

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 39/59 (66%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++V+D+TN+ SF+  K W++ ++   + N+   L GN
Sbjct: 67  DTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGN 125

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 41/63 (65%), Gaps = 13/63 (20%)
Query: 2   GENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI 61
           G+ + T+Q++             DTAGQERF+++  A+YRGA   +LVYD+TN  SF+NI
Sbjct: 54  GDKVATMQVW-------------DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI 100
Query: 62  KNW 64
           K+W
Sbjct: 101 KSW 103

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF  +   YYR + G +LVYDIT+E SF  +KNW++ + +     +   ++GN
Sbjct: 75  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGN 133

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF  +   YYR + G +LVYDIT+E SF  +KNW++ + +     +   ++GN
Sbjct: 61  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGN 119

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF  +   YYR + G +LVYDIT+E SF  +KNW++ + +     +   ++GN
Sbjct: 61  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGN 119

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 40/59 (67%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQ RFR +T +YYRGA G ++VYDIT   +++++ +W+ +     + N   +L+GN
Sbjct: 85  DTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGN 143

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 39/59 (66%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN +SF+N   WI++I      +V   L+GN
Sbjct: 56  DTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGN 114

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 37/59 (62%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 61  DTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 119

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 37/59 (62%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 69  DTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGN 127

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 37/59 (62%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 57  DTAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGN 115

>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 = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 37/59 (62%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 56  DTAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 114

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 36/59 (61%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 68  DTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 126

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/65 (41%), Positives = 40/65 (61%), Gaps = 2/65 (3%)
Query: 21  INYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEK 78
           I   DTAGQERFR ++   YYR    ++ VYD TN  SF ++  WI   +++  AN + +
Sbjct: 80  IQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPR 139
Query: 79  MLLGN 83
           +L+GN
Sbjct: 140 ILVGN 144

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/65 (41%), Positives = 41/65 (63%), Gaps = 2/65 (3%)
Query: 21  INYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEK 78
           I   DTAGQERFR ++   YYR    ++ VYD+TN  SF ++  WI   +++  AN + +
Sbjct: 71  IQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPR 130
Query: 79  MLLGN 83
           +L+GN
Sbjct: 131 ILVGN 135

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 36/59 (61%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 71  DTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 129

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 36/59 (61%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 61  DTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 119

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 43/81 (53%), Gaps = 13/81 (16%)
Query: 3   ENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK 62
           ENLC           N   +  DTAGQER+ +I   YYRGA   ++V+DI+N  + D  K
Sbjct: 88  ENLC-----------NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAK 136
Query: 63  NWIRNIEENASANVEKMLLGN 83
            W+  ++   S+N   +L+ N
Sbjct: 137 TWVNQLK--ISSNYIIILVAN 155

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 22/40 (55%), Positives = 28/40 (70%)
Query: 25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
          DTAGQE F  IT AYYRGA   +LV+  T+ +SF+ I +W
Sbjct: 60 DTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSW 99

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 30/42 (71%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIR 66
           DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW +
Sbjct: 66  DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKK 107

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 29/40 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW
Sbjct: 62  DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNW 101

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 31/48 (64%)
Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           H   +   DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW
Sbjct: 56  HFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNW 103

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 30/40 (75%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAGQERF+++ T +YRGA   +L + + + +SF+N+ NW
Sbjct: 62  DTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNW 101

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 29/40 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAGQERF+++  A+YRGA   +LV+D+T   +F  + +W
Sbjct: 63  DTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSW 102

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 48.9 bits (115), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 29/40 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAGQERF+++  A+YRGA   +LV+D+T   +F  + +W
Sbjct: 63  DTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSW 102

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 29/40 (72%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAGQERF+++  A+YRGA   +LV+D+T   +F  + +W
Sbjct: 63  DTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSW 102

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 18  NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW---IRNIEENASA 74
           N  +   D  GQ     +   Y  GA G++LVYDITN +SF+N+++W   ++ + E +  
Sbjct: 55  NVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESET 114
Query: 75  NVEKMLLGN 83
                L+GN
Sbjct: 115 QPLVALVGN 123

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 28/40 (70%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
           DTAG ERF+++  A+YRGA   +LV+D+T   +F  + +W
Sbjct: 63  DTAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSW 102

>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 = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 55  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLC 113
Query: 82  GN 83
           GN
Sbjct: 114 GN 115

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 67  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 125
Query: 82  GN 83
           GN
Sbjct: 126 GN 127

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 67  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 125
Query: 82  GN 83
           GN
Sbjct: 126 GN 127

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 18  NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANV 76
            FH++  DTAGQ+ +  +  ++  G  G +LVY +T+  SF  I++  + + E +    V
Sbjct: 71  EFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRV 130
Query: 77  EKMLLGN 83
             +L+GN
Sbjct: 131 PVVLVGN 137

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE+F  +   YY  A   ++ +D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAGQE++  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 21  INYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKM 79
           ++  DTAGQE +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +
Sbjct: 54  LDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMV 113
Query: 80  LLGN 83
           L+GN
Sbjct: 114 LVGN 117

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +L+GN
Sbjct: 58  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN 117

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +L+GN
Sbjct: 58  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN 117

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +L+GN
Sbjct: 58  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN 117

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 58  NVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLC 116
Query: 82  GN 83
           GN
Sbjct: 117 GN 118

>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 = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 28/48 (58%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIE 69
           N  DTAGQE+   +   YY GA G +L +D+T+  +  N+  W++  +
Sbjct: 64  NVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQ 111

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 62  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 121

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 62  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 121

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 64  NVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLC 122
Query: 82  GN 83
           GN
Sbjct: 123 GN 124

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 63  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 122

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 64  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 123

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 22  NYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLL 81
           N  DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L 
Sbjct: 62  NVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 120
Query: 82  GN 83
           GN
Sbjct: 121 GN 122

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 20  HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNI 68
           H++  DTAGQ+ +  +   +Y  A  ++L +D+T+  SFDNI N W   +
Sbjct: 83  HLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV 132

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L GN
Sbjct: 60  DTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGN 117

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L GN
Sbjct: 59  DTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGN 116

>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 = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG E+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L GN
Sbjct: 67  DTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGN 124

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG E +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +L+GN
Sbjct: 75  DTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN 134

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG+E +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGKEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DT GQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTGGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DT GQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTTGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE    +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG E +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI 68
           DTAGQE F  +   Y R   G +LV+ +T+  SF+ I  + R I
Sbjct: 59  DTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQI 102

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTA QE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTA QE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	83
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-39
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-39
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-39
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-39
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	3e-39
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-39
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	6e-39
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	6e-39
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-38
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-38
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-38
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-38
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-38
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-38
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	2e-38
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-38
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	4e-38
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-38
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	7e-38
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	8e-38
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	9e-38
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-37
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-37
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-37
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-37
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	5e-37
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	5e-37
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	5e-37
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	5e-37
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	5e-37
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	5e-37
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	7e-37
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	9e-37
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-36
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-36
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-35
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-35
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-35
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	6e-35
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-34
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-34
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-33
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	6e-32
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-29
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	3e-27
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-27
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-27
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-27
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	7e-27
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-26
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-26
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-26
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-26
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-26
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	3e-26
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-26
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	5e-26
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	6e-26
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	7e-26
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	7e-26
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	9e-26
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-25
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-23
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-23
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	7e-23
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-22
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-22
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	6e-21
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-20
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-19
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-15
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-14
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-14
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	9e-14
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	4e-13
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-12
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-12
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	5e-12
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	6e-12
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	6e-12
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	4e-10
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	5e-10
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	8e-10
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-08
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	3e-07
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-06

>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 =  127 bits (322), Expect = 1e-39
 Identities = 35/59 (59%), Positives = 45/59 (76%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T AYYR A  ++L+YD+TN+ SFDNI+ W+  I E A  +V  MLLGN
Sbjct: 66  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGN 124

>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 =  127 bits (322), Expect = 2e-39
 Identities = 55/59 (93%), Positives = 59/59 (100%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+VEKM+LGN
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

>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 =  128 bits (323), Expect = 2e-39
 Identities = 33/59 (55%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+I  +Y+R A G++L+YD+T EKSF NI+ W+  IE+ A   V  ML+GN
Sbjct: 83  DTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGN 141

>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 =  127 bits (322), Expect = 2e-39
 Identities = 33/59 (55%), Positives = 46/59 (77%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+RTITTAYYRGAMG +L+YDI N++SF  +++W   I+  +  N + +L+GN
Sbjct: 77  DTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGN 135

>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 =  127 bits (322), Expect = 3e-39
 Identities = 34/59 (57%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 63  DTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGN 121

>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 =  126 bits (320), Expect = 3e-39
 Identities = 33/59 (55%), Positives = 48/59 (81%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF +IT+AYYR A GI+LVYDIT +++FD++  W++ I++ AS + E +L+GN
Sbjct: 81  DTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGN 139

>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 =  125 bits (317), Expect = 6e-39
 Identities = 39/59 (66%), Positives = 50/59 (84%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGI+LVYDIT+E++F NIK W + + E+A+   + +L+GN
Sbjct: 58  DTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGN 116

>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 =  126 bits (319), Expect = 6e-39
 Identities = 31/59 (52%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT +YYR A G +L YDIT   SF ++ +WI ++ + A +N+ ++L+GN
Sbjct: 84  DTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGN 142

>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 =  126 bits (318), Expect = 1e-38
 Identities = 33/59 (55%), Positives = 51/59 (86%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRG+ GI++VYD+T+++SF+ +K W++ I+  A++ V K+L+GN
Sbjct: 63  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGN 121

>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 =  126 bits (318), Expect = 1e-38
 Identities = 37/59 (62%), Positives = 52/59 (88%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 88  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 146

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  125 bits (316), Expect = 2e-38
 Identities = 37/59 (62%), Positives = 52/59 (88%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT++YYRGA GI++VYD+T+++SF+N+K W++ I+  AS NV K+L+GN
Sbjct: 71  DTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGN 129

>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 =  125 bits (316), Expect = 2e-38
 Identities = 35/59 (59%), Positives = 48/59 (81%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  +  N + +L+GN
Sbjct: 78  DTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGN 136

>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 =  125 bits (316), Expect = 2e-38
 Identities = 27/59 (45%), Positives = 45/59 (76%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LV+D+T  +++  ++ W++ + ++A A +  ML+GN
Sbjct: 80  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGN 138

>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 =  125 bits (316), Expect = 2e-38
 Identities = 33/59 (55%), Positives = 43/59 (72%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR+IT +YYR A  ++L YDIT E+SF  +  W+R IE+ AS  V  +L+GN
Sbjct: 81  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGN 139

>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 =  125 bits (317), Expect = 2e-38
 Identities = 38/59 (64%), Positives = 50/59 (84%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTITTAYYRGAMGI+LVYD+T+E++F NIK W + + E+A+   + +L+GN
Sbjct: 75  DTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGN 133

>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 =  124 bits (313), Expect = 3e-38
 Identities = 26/59 (44%), Positives = 38/59 (64%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF  +   YYR + G +LVYDIT+E SF  +KNW++ + +     +   ++GN
Sbjct: 61  DTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGN 119

>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 =  124 bits (314), Expect = 4e-38
 Identities = 29/59 (49%), Positives = 46/59 (77%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 84  DTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142

>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 =  123 bits (312), Expect = 6e-38
 Identities = 30/59 (50%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE FR+IT +YYRGA G +LVYDIT  ++F+++ +W+ +  +++S+N+  ML+GN
Sbjct: 76  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGN 134

>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 =  123 bits (312), Expect = 7e-38
 Identities = 30/59 (50%), Positives = 47/59 (79%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+  ML+GN
Sbjct: 60  DTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 118

>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 =  123 bits (312), Expect = 8e-38
 Identities = 29/59 (49%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ ++++++  W+ +    AS N+  +L GN
Sbjct: 80  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGN 138

>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 =  123 bits (311), Expect = 9e-38
 Identities = 32/60 (53%), Positives = 48/60 (80%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN 83
           DTAG ERFR++TTA++R AMG +L++D+TNE+SF N++NWI  ++ +A S N + +L GN
Sbjct: 76  DTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGN 135

>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 =  123 bits (310), Expect = 1e-37
 Identities = 26/59 (44%), Positives = 41/59 (69%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR +T +YYRGA G ++VYDIT   +++++ +W+ +     + N   +L+GN
Sbjct: 70  DTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGN 128

>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 =  123 bits (310), Expect = 1e-37
 Identities = 30/59 (50%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++T +YYRGA G +LVYDIT+ ++++ + NW+ +    AS N+  +L GN
Sbjct: 65  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 123

>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 =  122 bits (308), Expect = 1e-37
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR +   YYRG+   ++VYDIT E++F  +KNW+R + ++   ++   + GN
Sbjct: 61  DTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGN 119

>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 =  124 bits (312), Expect = 1e-37
 Identities = 32/59 (54%), Positives = 44/59 (74%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+R IT+AYYRGA+G ++VYDI+   S++N  +W+  + ENA  NV   L+GN
Sbjct: 68  DTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGN 126

>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 =  122 bits (308), Expect = 5e-37
 Identities = 30/60 (50%), Positives = 49/60 (81%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASA-NVEKMLLGN 83
           DTAGQERFR++TTA++R AMG +L++D+T+++SF N++NW+  ++ NA   N + +L+GN
Sbjct: 90  DTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGN 149

>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 =  121 bits (305), Expect = 5e-37
 Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE F  IT AYYRGA   +LV+  T+ +SF+ I +W   +      ++   L+ N
Sbjct: 60  DTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQN 117

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  121 bits (305), Expect = 5e-37
 Identities = 32/59 (54%), Positives = 46/59 (77%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFRTIT+ YYRG  G+++VYD+T+ +SF N+K W+  I +N   +V ++L+GN
Sbjct: 64  DTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGN 121

>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 =  121 bits (305), Expect = 5e-37
 Identities = 24/59 (40%), Positives = 39/59 (66%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++V+D+TN+ SF+  K W++ ++   + N+   L GN
Sbjct: 67  DTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGN 125

>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 =  120 bits (304), Expect = 5e-37
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW++ ++  AS N+   L GN
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGN 119

>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 =  121 bits (306), Expect = 5e-37
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF ++   YYRG+   ++VYDIT + SF  +K W++ ++E+   N+   + GN
Sbjct: 78  DTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGN 136

>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 =  120 bits (304), Expect = 7e-37
 Identities = 26/59 (44%), Positives = 37/59 (62%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 69  DTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGN 127

>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 =  121 bits (306), Expect = 9e-37
 Identities = 25/59 (42%), Positives = 36/59 (61%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAG ERFR++  +Y R +   ++VYDITN  SF     WI ++     ++V  ML+GN
Sbjct: 71  DTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGN 129

>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 =  121 bits (306), Expect = 1e-36
 Identities = 17/59 (28%), Positives = 30/59 (50%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE+   +   YY GA G +L +D+T+  +  N+  W++  +         ++  N
Sbjct: 67  DTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCAN 125

>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 =  120 bits (302), Expect = 2e-36
 Identities = 31/60 (51%), Positives = 43/60 (71%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEKMLLGN 83
           DTAGQERFRT+T +YYRGA G++LVYD+T   +F  + NW+  +E   + N +  ML+GN
Sbjct: 70  DTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGN 129

>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 =  118 bits (297), Expect = 1e-35
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 2/61 (3%)

Query: 25  DTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN-VEKMLLG 82
           DTAGQERFR ++   YYR    ++ VYD+TN  SF ++  WI   +++  AN + ++L+G
Sbjct: 75  DTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVG 134

Query: 83  N 83
           N
Sbjct: 135 N 135

>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 =  117 bits (295), Expect = 2e-35
 Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 3/62 (4%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE---NASANVEKMLL 81
           D  GQ     +   Y  GA G++LVYDITN +SF+N+++W   +++    +       L+
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALV 121

Query: 82  GN 83
           GN
Sbjct: 122 GN 123

>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 =  116 bits (293), Expect = 3e-35
 Identities = 23/63 (36%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASA----NVEKML 80
           DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW +     A      +   ++
Sbjct: 62  DTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVI 121

Query: 81  LGN 83
           LGN
Sbjct: 122 LGN 124

>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 =  116 bits (294), Expect = 6e-35
 Identities = 25/63 (39%), Positives = 37/63 (58%), Gaps = 4/63 (6%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS----ANVEKML 80
           DTAGQERF+++  A+YRGA   +LV+D+T   +F  + +W       AS     N   ++
Sbjct: 63  DTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVV 122

Query: 81  LGN 83
           LGN
Sbjct: 123 LGN 125

>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 =  115 bits (290), Expect = 1e-34
 Identities = 32/86 (37%), Positives = 49/86 (56%), Gaps = 17/86 (19%)

Query: 2   GENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI 61
           G+ + T+Q++             DTAGQERF+++  A+YRGA   +LVYD+TN  SF+NI
Sbjct: 54  GDKVATMQVW-------------DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI 100

Query: 62  KNWIRNIEENASA----NVEKMLLGN 83
           K+W      +A+         ++LGN
Sbjct: 101 KSWRDEFLVHANVNSPETFPFVILGN 126

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  115 bits (291), Expect = 1e-34
 Identities = 15/62 (24%), Positives = 35/62 (56%), Gaps = 3/62 (4%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW---IRNIEENASANVEKMLL 81
           DTAG + ++   + Y+ G    +LV+D+++ +SF++ K W   +++   +    +  +L+
Sbjct: 79  DTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLV 138

Query: 82  GN 83
            N
Sbjct: 139 AN 140

>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 =  113 bits (286), Expect = 1e-33
 Identities = 20/59 (33%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQE+F  +   YY  A   ++++D+T+  ++ N+ NW R++      N+  +L GN
Sbjct: 70  DTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGN 127

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  109 bits (273), Expect = 6e-32
 Identities = 24/59 (40%), Positives = 37/59 (62%), Gaps = 2/59 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQER+ +I   YYRGA   ++V+DI+N  + D  K W+  ++   S+N   +L+ N
Sbjct: 99  DTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLK--ISSNYIIILVAN 155

>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 =  102 bits (255), Expect = 2e-29
 Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKS-FDNIKNWIRNIEENASANVEKMLLGN 83
           D AG+E F +    +       + VYD++  ++  D +K W+ NI+  AS +   +L+G 
Sbjct: 62  DFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGT 120

>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 = 96.4 bits (241), Expect = 3e-27
 Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE F  +   Y R   G +LV+ I + +SF+ +      I       +   +L+GN
Sbjct: 63  DTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGN 122

>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 = 96.1 bits (240), Expect = 3e-27
 Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 14/79 (17%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L +              DTAGQE F  +   Y R   G ++VY +T++ SF+++  + 
Sbjct: 66  AILDVL-------------DTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFH 112

Query: 66  RNIEENA-SANVEKMLLGN 83
           + I       +   +L+ N
Sbjct: 113 QLILRVKDRESFPMILVAN 131

>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 = 95.6 bits (239), Expect = 4e-27
 Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 14/79 (17%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
            +L ++             D   Q+  R +           ++VY +T++ SF+      
Sbjct: 49  ASLMVY-------------DIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELR 95

Query: 66  RNI-EENASANVEKMLLGN 83
             +     + +V  +L+GN
Sbjct: 96  VQLRRARQTDDVPIILVGN 114

>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 = 95.7 bits (239), Expect = 6e-27
 Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 14/79 (17%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             + I              DTAGQE +  I   Y+R   G + V+ IT  +SF    ++ 
Sbjct: 66  VQIDIL-------------DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFR 112

Query: 66  RNIEE-NASANVEKMLLGN 83
             I       NV  +L+GN
Sbjct: 113 EQILRVKEDENVPFLLVGN 131

>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 = 94.9 bits (237), Expect = 7e-27
 Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  I   Y+R   G + V+ IT  +SF    ++   I       NV  +L+GN
Sbjct: 58  DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGN 117

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 95.4 bits (238), Expect = 1e-26
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENASANVEKMLLGN 83
           DTAGQ+ +  +  ++  G  G +LVY +T+  SF  I++  + + E +    V  +L+GN
Sbjct: 78  DTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGN 137

>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 = 95.4 bits (238), Expect = 2e-26
 Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 14/79 (17%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             + I              DTAGQE +  I   Y+R   G + V+ IT  +SF    ++ 
Sbjct: 62  VQIDIL-------------DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFR 108

Query: 66  RNIEE-NASANVEKMLLGN 83
             I       NV  +L+GN
Sbjct: 109 EQILRVKEDENVPFLLVGN 127

>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 = 94.5 bits (236), Expect = 2e-26
 Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENASANVEKMLLGN 83
           DTAGQ+ +      Y     G +LVY +T+ KSF+ IK     + +      +  ML+GN
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGN 119

>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 = 94.1 bits (235), Expect = 2e-26
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    S +V  +L+GN
Sbjct: 57  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGN 116

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 93.7 bits (234), Expect = 2e-26
 Identities = 11/80 (13%), Positives = 28/80 (35%), Gaps = 15/80 (18%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
            TL ++             D   Q      +     +     ++V+ +T+ +SF  +   
Sbjct: 51  VTLIVY-------------DIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPET 97

Query: 65  IRNI-EENASANVEKMLLGN 83
           +  +       ++  +L+GN
Sbjct: 98  LLRLRAGRPHHDLPVILVGN 117

>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 = 93.3 bits (233), Expect = 3e-26
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG E+F ++   Y +   G +LVY + N++SF +IK     I        V  +L+GN
Sbjct: 57  DTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGN 116

>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 = 93.8 bits (234), Expect = 5e-26
 Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
           CTLQI              DT G  +F  +           +LV+ +T+++S + +    
Sbjct: 56  CTLQIT-------------DTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIY 102

Query: 66  RNIEE--NASANVEKMLLGN 83
           + I +   +  ++  ML+GN
Sbjct: 103 KLIVQIKGSVEDIPVMLVGN 122

>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 = 92.6 bits (231), Expect = 5e-26
 Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAG E+F  +   Y +   G  LVY IT + +F+++++    I     + +V  +L+GN
Sbjct: 57  DTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGN 116

>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 = 93.4 bits (233), Expect = 6e-26
 Identities = 11/80 (13%), Positives = 28/80 (35%), Gaps = 15/80 (18%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
            TL ++             D   Q      +     +     ++V+ +T+ +SF  +   
Sbjct: 72  VTLVVY-------------DIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPET 118

Query: 65  IRNIEEN-ASANVEKMLLGN 83
           +  +       ++  +L+GN
Sbjct: 119 LLRLRAGRPHHDLPVILVGN 138

>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 = 93.0 bits (232), Expect = 7e-26
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE-NASANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF++I ++   I+    S +V  +L+GN
Sbjct: 58  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN 117

>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 = 92.6 bits (230), Expect = 7e-26
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           DTAGQERF ++   YYR A   ++VYD+T  +SF   ++W++ + E AS ++   L+GN
Sbjct: 58  DTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGN 116

>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 = 92.2 bits (230), Expect = 9e-26
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE--NASANVEKMLLG 82
           DT G  +F  +           +LVY IT+ +S + +K     I E      ++  ML+G
Sbjct: 57  DTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVG 116

Query: 83  N 83
           N
Sbjct: 117 N 117

>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 = 92.7 bits (231), Expect = 1e-25
 Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 1/60 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN 83
           DTAGQE +  +   Y R   G + V+ I N KSF +I  +   I+    S +V  +L+GN
Sbjct: 75  DTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGN 134

>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 = 87.2 bits (217), Expect = 1e-23
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 16/81 (19%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITT--AYYRGAMGIMLVYDITNEKSFDNIKN 63
            TL +              DT   E+     +  +  +G    ++VY I +  SF++   
Sbjct: 52  TTLVVV-------------DTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASE 98

Query: 64  WIRNI-EENASANVEKMLLGN 83
               +   + + +V  +L+GN
Sbjct: 99  LRIQLRRTHQADHVPIILVGN 119

>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 = 87.0 bits (216), Expect = 2e-23
 Identities = 10/60 (16%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENASANVEKMLLGN 83
           +  G+  +  +     +     ++VY IT+  SF+        +     + ++  +L+GN
Sbjct: 65  ENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGN 122

>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 = 85.8 bits (213), Expect = 7e-23
 Identities = 10/60 (16%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENASANVEKMLLGN 83
           +  G+  +  +     +     ++VY IT+  SF+        +     + ++  +L+GN
Sbjct: 96  ENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGN 153

>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 = 84.2 bits (209), Expect = 2e-22
 Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN-ASANVEKMLLGN 83
           DTAGQE        + R   G +LVYDIT+  SF+ +      ++E     NV  +L+GN
Sbjct: 82  DTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGN 140

>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 = 83.4 bits (207), Expect = 4e-22
 Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 19/79 (24%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L I             RD  G    +     +      ++ V+ + +E SF  + N+ 
Sbjct: 67  YLLLI-------------RDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYF 108

Query: 66  RNIEENA-SANVEKMLLGN 83
             +     ++ V  +L+G 
Sbjct: 109 LRLCSFRNASEVPMVLVGT 127

>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 = 80.0 bits (198), Expect = 6e-21
 Identities = 11/81 (13%), Positives = 26/81 (32%), Gaps = 21/81 (25%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW- 64
             + I             R+ AG    +     +   A  ++ V+ + +E SF  +    
Sbjct: 54  HLVLI-------------REEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLH 95

Query: 65  --IRNIEENASANVEKMLLGN 83
             + ++       +   L+G 
Sbjct: 96  GQLSSLRGEGRGGLALALVGT 116

>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 = 79.2 bits (196), Expect = 2e-20
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 4/62 (6%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA---SANVEKMLL 81
           DTA  +  R     Y   A   ++VY + + +SFD+  +++  +  +A     ++  +LL
Sbjct: 75  DTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLL 133

Query: 82  GN 83
           GN
Sbjct: 134 GN 135

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 78.5 bits (193), Expect = 5e-19
 Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN 83
           D  GQE        +   +   ML+ D     +  N   W+R+IE+        +++ N
Sbjct: 104 DFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYGG-KSPVIVVMN 158

>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 = 66.2 bits (162), Expect = 2e-15
 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
           F ++  DTAGQE +  +    Y  +  ++L + + N  SFDNI   W   I+       +
Sbjct: 71  FILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAK 129

Query: 78  KMLLGN 83
            +L+G 
Sbjct: 130 TVLVGL 135

>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 = 64.0 bits (156), Expect = 2e-14
 Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 2/60 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVEKMLLGN 83
           DTAGQ+ +  +   +Y  A  ++L +D+T+  SFDNI N W   +       V  +++G 
Sbjct: 88  DTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGC 146

>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 = 63.2 bits (154), Expect = 2e-14
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 5/83 (6%)

Query: 2   GENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI 61
            +N     +  G      ++   DTAGQE +  +    YRGA   +L + + ++ S++N+
Sbjct: 42  FDNFSANVVVNG---ATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV 98

Query: 62  KN-WIRNIEENASANVEKMLLGN 83
              WI  ++  A   V  +L+G 
Sbjct: 99  SKKWIPELKHYA-PGVPIVLVGT 120

>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 = 62.1 bits (151), Expect = 9e-14
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
             +   DTAGQE +  +    Y     I++ + I +  S +NI   W   ++     NV 
Sbjct: 73  VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVP 131

Query: 78  KMLLGN 83
            +L+GN
Sbjct: 132 IILVGN 137

>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 = 59.7 bits (145), Expect = 4e-13
 Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 18  NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANV 76
              ++  DT+G   +  +    Y  +  +++ +DI+  ++ D++   W   I+E    N 
Sbjct: 54  RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NT 112

Query: 77  EKMLLGN 83
           + +L+G 
Sbjct: 113 KMLLVGC 119

>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 = 59.0 bits (143), Expect = 1e-12
 Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
             +   DTAGQE +  +    Y     I++ + + +  S +NI   W+  ++     NV 
Sbjct: 73  VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVP 131

Query: 78  KMLLGN 83
            +L+ N
Sbjct: 132 IILVAN 137

>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 = 58.6 bits (142), Expect = 2e-12
 Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 5/82 (6%)

Query: 3   ENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK 62
           EN                ++  DT+G   +  +    Y  +  +++ +DI+  ++ D++ 
Sbjct: 63  ENYTASFEIDT---QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVL 119

Query: 63  N-WIRNIEENASANVEKMLLGN 83
             W   I+E    N + +L+G 
Sbjct: 120 KKWKGEIQEFCP-NTKMLLVGC 140

>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 = 57.5 bits (139), Expect = 5e-12
 Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
            ++   DTAGQE +  +    Y      ++ + + +  SF+N++  W   +  +   N  
Sbjct: 78  VNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTP 136

Query: 78  KMLLGN 83
            +L+G 
Sbjct: 137 IILVGT 142

>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 = 57.1 bits (138), Expect = 6e-12
 Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 2/68 (2%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASAN 75
              ++   DTAGQE +  +    Y      ++ + + +  SF+N++  W   +  +   N
Sbjct: 51  KPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPN 109

Query: 76  VEKMLLGN 83
              +L+G 
Sbjct: 110 TPIILVGT 117

>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 = 57.2 bits (138), Expect = 6e-12
 Identities = 13/67 (19%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 18  NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-KNWIRNIEENASANV 76
              ++  DT+G   +  +    Y  +  ++L +DI+  ++ D+  K W   I +    + 
Sbjct: 74  RVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-ST 132

Query: 77  EKMLLGN 83
             +L+G 
Sbjct: 133 RVLLIGC 139

>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 = 52.1 bits (125), Expect = 4e-10
 Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
           + +   DTAGQE +  +    Y      ++ + + N  SF N+K  W+  ++E A  NV 
Sbjct: 66  YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVP 124

Query: 78  KMLLGN 83
            +L+G 
Sbjct: 125 FLLIGT 130

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 52.0 bits (125), Expect = 5e-10
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 18  NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANV 76
              +   DTAGQ+ F  +    Y      +L + + +  SF N+   W+  I  +     
Sbjct: 67  PVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KA 125

Query: 77  EKMLLGN 83
             +L+G 
Sbjct: 126 PIILVGT 132

>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 = 51.6 bits (124), Expect = 8e-10
 Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 2/60 (3%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVEKMLLGN 83
           DTAGQE +  +    YRGA   +L + + ++ S++N+   W+  +    + NV  +L+G 
Sbjct: 63  DTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPIVLVGT 121

>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 = 48.1 bits (114), Expect = 2e-08
 Identities = 11/99 (11%), Positives = 26/99 (26%), Gaps = 40/99 (40%)

Query: 25  DTAGQERFRTITTAYYRGAM-------------------------------------GIM 47
           D   Q    T    Y + A                                      G +
Sbjct: 108 DQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFL 167

Query: 48  LVYDITNE--KSFDNIKNWIRNIEENASANVEKMLL-GN 83
           L  D++    ++FD+   ++ N+    +   + +++   
Sbjct: 168 LGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLT 206

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 44.7 bits (106), Expect = 3e-07
 Identities = 13/55 (23%), Positives = 21/55 (38%), Gaps = 1/55 (1%)

Query: 25  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKM 79
              GQ  +        RG  GI+ V D    +   N ++  RN+ EN +     +
Sbjct: 80  TVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESM-RNMRENLAEYGLTL 133

>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 = 43.4 bits (102), Expect = 1e-06
 Identities = 12/66 (18%), Positives = 28/66 (42%), Gaps = 2/66 (3%)

Query: 19  FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN-WIRNIEENASANVE 77
            ++   DTAG E +  +    Y      ++ + + +  SF +++  W   +  +   N  
Sbjct: 203 VNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTP 261

Query: 78  KMLLGN 83
            +L+G 
Sbjct: 262 IILVGT 267

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	83
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.96
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.9
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.9
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.9
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.9
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.89
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.89
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.89
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.89
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.89
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.89
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.89
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.89
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.89
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.88
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.88
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.88
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.88
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.88
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.88
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.88
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.88
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.88
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.88
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.88
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.88
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.88
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.88
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.88
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.88
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.88
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.88
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.88
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.88
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.88
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.88
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.88
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.88
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.88
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.88
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.88
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.88
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.87
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.87
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.87
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.87
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.87
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.87
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.87
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.87
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.87
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.87
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.87
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.87
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.87
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.87
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.87
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.87
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.87
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.87
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.87
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.86
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.86
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.86
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.86
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.86
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.86
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.86
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.86
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.86
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.86
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.86
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.86
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.86
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.85
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.85
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.85
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.85
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.85
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.85
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.85
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.85
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.85
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.85
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.85
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.85
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.84
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.84
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.84
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.84
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.84
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.84
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.84
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.84
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.84
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.83
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.83
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.73
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.83
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.82
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.81
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.8
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.8
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.78
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.77
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.77
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.76
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.76
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.75
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.73
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.71
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.69
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.69
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.69
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.67
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.67
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.65
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.63
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.63
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.61
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.59
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.59
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.56
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.56
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.53
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.52
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.51
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.51
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.5
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.47
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.47
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.47
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.45
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.44
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.44
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.44
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.43
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.43
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.41
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.41
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.41
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.4
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.4
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.39
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.39
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.38
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.38
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.37
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.36
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.36
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.35
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.35
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.35
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.34
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.33
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.32
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.32
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.32
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.32
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.31
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.29
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.29
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.27
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.27
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.26
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.26
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.25
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.23
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.21
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.2
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.19
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.19
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.19
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.19
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.18
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.17
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.15
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.13
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.07
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.05
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.05
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.03
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.0
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.96
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.95
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.91
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.91
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.91
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.87
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.83
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.81
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.74
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.65
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.61
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.57
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.55
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.48
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.37
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.33
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	97.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.88
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.54
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.52
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.42
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.38
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.31
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.24
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.07
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	96.93
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.81
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	95.52
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.3
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	95.24
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.88
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.82
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	91.01
2chg_A	226	Replication factor C small subunit; DNA-binding pr	88.88
3co5_A	143	Putative two-component system transcriptional RES	87.85
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	86.33
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	85.37
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	84.61
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	80.77
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	80.62
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	80.43

>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=99.96  E-value=3e-30  Score=152.18  Aligned_cols=83  Identities=33%  Similarity=0.621  Sum_probs=79.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||..+.|.                    ..++++||||+|||+|+.+++.|+++++++++|||+++++||++
T Consensus        24 VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~  103 (216)
T 4dkx_A           24 VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQ  103 (216)
T ss_dssp             SSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHH
Confidence            6999999999999886                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++++..++++|++||||
T Consensus       104 i~~~~~~i~~~~~~~~piilVgN  126 (216)
T 4dkx_A          104 TTKWIDDVRTERGSDVIIMLVGN  126 (216)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCeEEEEee
Confidence            99999999988878999999998

>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=99.90  E-value=9e-24  Score=120.27  Aligned_cols=83  Identities=69%  Similarity=1.064  Sum_probs=54.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..+++++|++++|||+++++||+.
T Consensus        19 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   98 (183)
T 2fu5_C           19 VGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   98 (183)
T ss_dssp             C----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHH
Confidence            7999999999877654                    44789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|++||||
T Consensus        99 ~~~~~~~i~~~~~~~~piilv~n  121 (183)
T 2fu5_C           99 IRNWIRNIEEHASADVEKMILGN  121 (183)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887667899999997

>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=99.90  E-value=5e-24  Score=124.75  Aligned_cols=82  Identities=18%  Similarity=0.494  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH-
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN-   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~-   60 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..++..++++++++|+|||+++++||++ 
T Consensus        38 vGKSsL~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  117 (214)
T 3q3j_B           38 CGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSA  117 (214)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHH
Confidence            7999999999887765                   45789999999999999999999999999999999999999999 


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+.+.. +++|++||||
T Consensus       118 ~~~~~~~i~~~~-~~~piilv~n  139 (214)
T 3q3j_B          118 LKKWRTEILDYC-PSTRVLLIGC  139 (214)
T ss_dssp             HTHHHHHHHHHC-TTSEEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            689999998876 6899999997

>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=99.90  E-value=8.5e-24  Score=122.62  Aligned_cols=83  Identities=41%  Similarity=0.752  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++|||+|+++|..++..++++++++|+|||++++++|++
T Consensus        40 vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~  119 (201)
T 2hup_A           40 VGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLS  119 (201)
T ss_dssp             SSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHT
T ss_pred             CCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHH
Confidence            6999999999877664                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|++||||
T Consensus       120 ~~~~~~~i~~~~~~~~piilv~N  142 (201)
T 2hup_A          120 VPHWIEDVRKYAGSNIVQLLIGN  142 (201)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>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=99.90  E-value=1.7e-23  Score=121.77  Aligned_cols=83  Identities=43%  Similarity=0.739  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|+++|..++..++++++++++|||++++++|+.
T Consensus        37 vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~  116 (201)
T 2ew1_A           37 VGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRC  116 (201)
T ss_dssp             SSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHH
Confidence            6999999998776553                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++......++|+++|||
T Consensus       117 ~~~~~~~i~~~~~~~~piilv~N  139 (201)
T 2ew1_A          117 LPEWLREIEQYASNKVITVLVGN  139 (201)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>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=99.89  E-value=1.9e-23  Score=119.45  Aligned_cols=82  Identities=21%  Similarity=0.515  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..+++.++++++++++|||+++++||+++
T Consensus        18 vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   97 (184)
T 1m7b_A           18 CGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSV   97 (184)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHH
Confidence            6999999999877654                   457899999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       +.|++++++.. +++|++||||
T Consensus        98 ~~~~~~~i~~~~-~~~piilv~n  119 (184)
T 1m7b_A           98 LKKWKGEIQEFC-PNTKMLLVGC  119 (184)
T ss_dssp             HHTHHHHHHHHC-TTCEEEEEEE
T ss_pred             HHHHHHHHHHHC-CCCCEEEEEE
Confidence             78999998776 6899999997

>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=99.89  E-value=4.4e-23  Score=115.68  Aligned_cols=83  Identities=41%  Similarity=0.755  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+++|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        17 ~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   96 (170)
T 1r2q_A           17 VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR   96 (170)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHH
Confidence            6999999998876553                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.+...+++|+++|||
T Consensus        97 ~~~~~~~~~~~~~~~~~iilv~n  119 (170)
T 1r2q_A           97 AKNWVKELQRQASPNIVIALSGN  119 (170)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887667999999997

>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=99.89  E-value=5.1e-23  Score=115.41  Aligned_cols=83  Identities=35%  Similarity=0.672  Sum_probs=75.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|++
T Consensus        14 ~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   93 (170)
T 1ek0_A           14 VGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIK   93 (170)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHH
Confidence            6999999988776653                    45689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|+++|||
T Consensus        94 ~~~~~~~~~~~~~~~~piilv~n  116 (170)
T 1ek0_A           94 ARHWVKELHEQASKDIIIALVGN  116 (170)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887767899999987

>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=99.89  E-value=3.7e-23  Score=120.55  Aligned_cols=82  Identities=21%  Similarity=0.515  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..++..++++++++|+|||+++++||+++
T Consensus        39 vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~  118 (205)
T 1gwn_A           39 CGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSV  118 (205)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHH
Confidence            7999999999877653                   457899999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       +.|++++++.. +++|++||||
T Consensus       119 ~~~~~~~i~~~~-~~~piilv~n  140 (205)
T 1gwn_A          119 LKKWKGEIQEFC-PNTKMLLVGC  140 (205)
T ss_dssp             HHTHHHHHHHHC-TTCEEEEEEE
T ss_pred             HHHHHHHHHHHC-CCCCEEEEEe
Confidence             78999998876 6899999997

>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=99.89  E-value=4.2e-23  Score=118.55  Aligned_cols=83  Identities=42%  Similarity=0.773  Sum_probs=76.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..++++++++++|||++++++|+.
T Consensus        32 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~  111 (191)
T 2a5j_A           32 VGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNH  111 (191)
T ss_dssp             SSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHH
Confidence            6999999998876654                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....+++|+++|||
T Consensus       112 ~~~~l~~i~~~~~~~~piilv~n  134 (191)
T 2a5j_A          112 LTSWLEDARQHSSSNMVIMLIGN  134 (191)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>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=99.89  E-value=1e-22  Score=115.48  Aligned_cols=83  Identities=33%  Similarity=0.683  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        23 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  102 (181)
T 2efe_B           23 AGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFER  102 (181)
T ss_dssp             SCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHH
Confidence            6999999998776553                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|+++|+|
T Consensus       103 ~~~~~~~~~~~~~~~~p~i~v~n  125 (181)
T 2efe_B          103 AKKWVQELQAQGNPNMVMALAGN  125 (181)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999888767899999997

>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=99.89  E-value=6e-23  Score=118.04  Aligned_cols=82  Identities=27%  Similarity=0.499  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|+++|..++..+++++|++++|||+++++||+++
T Consensus        34 ~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  113 (194)
T 3reg_A           34 VGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNI  113 (194)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHH
Confidence            6999999999888764                   567889999999999999999999999999999999999999998


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|++.+.... +++|++||||
T Consensus       114 ~~~~~~~~~~~~-~~~p~ilv~n  135 (194)
T 3reg_A          114 STKWEPEIKHYI-DTAKTVLVGL  135 (194)
T ss_dssp             HHTHHHHHHHHC-TTSEEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence             68999988765 6899999997

>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=99.89  E-value=3.8e-23  Score=118.67  Aligned_cols=82  Identities=24%  Similarity=0.444  Sum_probs=69.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++++.+ ..++++++++++|||+++++||+++
T Consensus        32 vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~  110 (187)
T 3c5c_A           32 AGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSS  110 (187)
T ss_dssp             SSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHH
T ss_pred             CcHHHHHHHHHhCCCCcccCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHH
Confidence            6999999998877654                   4578999999999999886 6799999999999999999999999


Q ss_pred             HHHHHHHHHhc---CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~---~~~~piilvgN   83 (83)
                      ..|++++.+..   .+++|++||||
T Consensus       111 ~~~~~~i~~~~~~~~~~~piilv~n  135 (187)
T 3c5c_A          111 SSYLELLALHAKETQRSIPALLLGN  135 (187)
T ss_dssp             HHHHHHHHHHHHHHCCCCCEEEEEE
T ss_pred             HHHHHHHHHHhhccCCCCCEEEEEE
Confidence            99999998764   26899999997

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.89  E-value=6.1e-23  Score=117.75  Aligned_cols=83  Identities=47%  Similarity=0.875  Sum_probs=76.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        27 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  106 (196)
T 3tkl_A           27 VGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNN  106 (196)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHH
Confidence            6999999999877664                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+......++|+++|||
T Consensus       107 ~~~~~~~i~~~~~~~~p~ilv~n  129 (196)
T 3tkl_A          107 VKQWLQEIDRYASENVNKLLVGN  129 (196)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999888777899999997

>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=99.88  E-value=6.2e-23  Score=116.93  Aligned_cols=83  Identities=40%  Similarity=0.720  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+++|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        21 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  100 (186)
T 2bme_A           21 TGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNA  100 (186)
T ss_dssp             SSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHH
Confidence            6999999998876654                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++......++|+++|||
T Consensus       101 ~~~~~~~~~~~~~~~~piilv~n  123 (186)
T 2bme_A          101 LTNWLTDARMLASQNIVIILCGN  123 (186)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887667899999997

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.88  E-value=6.4e-23  Score=120.43  Aligned_cols=83  Identities=41%  Similarity=0.745  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|+++|..++..++++++++|+|||++++++|+.
T Consensus        24 vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~  103 (223)
T 3cpj_B           24 VGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYEN  103 (223)
T ss_dssp             SSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHH
Confidence            6999999999877654                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++......++|++||||
T Consensus       104 ~~~~l~~i~~~~~~~~piilv~n  126 (223)
T 3cpj_B          104 CNHWLSELRENADDNVAVGLIGN  126 (223)
T ss_dssp             HHHHHHHHHHHCC--CEEEEEEC
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            99999999887667899999998

>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=99.88  E-value=1.3e-22  Score=113.83  Aligned_cols=83  Identities=33%  Similarity=0.673  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++++.
T Consensus        17 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   96 (170)
T 1z0j_A           17 VGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFST   96 (170)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHH
Confidence            6999999998877653                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+.....+.+|+++|||
T Consensus        97 ~~~~~~~l~~~~~~~~~iilv~n  119 (170)
T 1z0j_A           97 LKNWVRELRQHGPPSIVVAIAGN  119 (170)
T ss_dssp             HHHHHHHHHHHSCTTSEEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887668899999997

>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=99.88  E-value=3.7e-23  Score=116.21  Aligned_cols=83  Identities=35%  Similarity=0.677  Sum_probs=68.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..++++++++++|||++++++|+.
T Consensus        17 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   96 (170)
T 1z08_A           17 VGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQK   96 (170)
T ss_dssp             SCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHH
Confidence            6999999888766553                    45689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+..++++|+++|+|
T Consensus        97 ~~~~~~~~~~~~~~~~piilv~n  119 (170)
T 1z08_A           97 VKNWVKELRKMLGNEICLCIVGN  119 (170)
T ss_dssp             HHHHHHHHHHHHGGGSEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCeEEEEEE
Confidence            99999999887667899999997

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.88  E-value=3.6e-23  Score=120.36  Aligned_cols=82  Identities=26%  Similarity=0.480  Sum_probs=72.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..++..+++++|++++|||++++++|+++
T Consensus        20 ~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~   99 (212)
T 2j0v_A           20 VGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENV   99 (212)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccCCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHH
Confidence            6999999999877654                   457999999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++++.... +++|++||||
T Consensus       100 ~~~~~~~~~~~~-~~~piilv~n  121 (212)
T 2j0v_A          100 LKKWMPELRRFA-PNVPIVLVGT  121 (212)
T ss_dssp             HHTHHHHHHHHC-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEe
Confidence            7 8999998876 5899999997

>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=99.88  E-value=9.9e-23  Score=118.05  Aligned_cols=83  Identities=42%  Similarity=0.817  Sum_probs=75.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        19 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~   98 (206)
T 2bcg_Y           19 VGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNG   98 (206)
T ss_dssp             SSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHH
Confidence            6999999998766553                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....+++|++||||
T Consensus        99 ~~~~~~~i~~~~~~~~piilv~n  121 (206)
T 2bcg_Y           99 VKMWLQEIDRYATSTVLKLLVGN  121 (206)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>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=99.88  E-value=1e-22  Score=117.10  Aligned_cols=83  Identities=33%  Similarity=0.653  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..++++++++++|||++++++|+.
T Consensus        34 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~  113 (192)
T 2fg5_A           34 VGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYT  113 (192)
T ss_dssp             SSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHH
Confidence            6999999999876653                    45689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...+++|+++|||
T Consensus       114 ~~~~~~~i~~~~~~~~piiiv~N  136 (192)
T 2fg5_A          114 LKKWVKELKEHGPENIVMAIAGN  136 (192)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999999887767899999997

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.88  E-value=1.8e-22  Score=116.56  Aligned_cols=83  Identities=20%  Similarity=0.421  Sum_probs=62.9

Q ss_pred             CCcceeeeeeccC--ccc--------------------e--EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh
Q psy16649          1 SGENLCTLQIFRG--CFQ--------------------H--NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus         1 ~GKss~~~~~~~~--~~~--------------------~--~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      +|||||+.++..+  .+.                    .  .+.+++|||+|++++..++..+++++|++++|||+++++
T Consensus        31 ~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~  110 (208)
T 2yc2_C           31 VGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSME  110 (208)
T ss_dssp             ------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHH
T ss_pred             CCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHH
Confidence            6999999999887  543                    2  788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcC---CCceEEEEeC
Q psy16649         57 SFDNIKNWIRNIEENAS---ANVEKMLLGN   83 (83)
Q Consensus        57 s~~~~~~w~~~~~~~~~---~~~piilvgN   83 (83)
                      +|+.+..|++++....+   .++|+++|||
T Consensus       111 s~~~~~~~~~~i~~~~~~~~~~~piilv~n  140 (208)
T 2yc2_C          111 SFESCKAWFELLKSARPDRERPLRAVLVAN  140 (208)
T ss_dssp             HHHHHHHHHHHHHHHCSCTTSCCEEEEEEE
T ss_pred             HHHHHHHHHHHHHHhhcccccCCcEEEEEE
Confidence            99999999999998875   6899999997

>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=99.88  E-value=1.2e-22  Score=117.42  Aligned_cols=83  Identities=43%  Similarity=0.773  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..++++++++|+|||++++++|+.
T Consensus        19 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~   98 (203)
T 1zbd_A           19 VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNA   98 (203)
T ss_dssp             SSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHH
Confidence            6999999998877653                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++......++|+++|||
T Consensus        99 ~~~~~~~i~~~~~~~~piilv~n  121 (203)
T 1zbd_A           99 VQDWSTQIKTYSWDNAQVLLVGN  121 (203)
T ss_dssp             HHHHHHHHHHHSCSSCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.88  E-value=7.8e-23  Score=118.02  Aligned_cols=82  Identities=20%  Similarity=0.439  Sum_probs=72.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++|||+|+++|..++..+++++|++++|||++++++|+++
T Consensus        31 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~  110 (201)
T 2q3h_A           31 VGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNV  110 (201)
T ss_dssp             SSHHHHHHHHHC--------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHH
Confidence            6999999998876654                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++++.... +++|++||||
T Consensus       111 ~~~~~~~~~~~~-~~~p~ilv~n  132 (201)
T 2q3h_A          111 SEKWVPEIRCHC-PKAPIILVGT  132 (201)
T ss_dssp             HHTHHHHHHHHC-SSSCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            7 7999998876 5899999997

>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=99.88  E-value=6.4e-23  Score=117.82  Aligned_cols=82  Identities=26%  Similarity=0.514  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.|.                   ..+.+++|||+|+++|..++..+++++|++++|||+++++||+++
T Consensus        29 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  108 (194)
T 2atx_A           29 VGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNV  108 (194)
T ss_dssp             SSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHH
Confidence            6999999999877654                   457899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|+.++.+.. +++|+++|||
T Consensus       109 ~~~~~~~~~~~~-~~~piilv~n  130 (194)
T 2atx_A          109 KEEWVPELKEYA-PNVPFLLIGT  130 (194)
T ss_dssp             HHTHHHHHHHHS-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            7 8999998876 5899999997

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.88  E-value=1.9e-23  Score=129.28  Aligned_cols=82  Identities=12%  Similarity=0.173  Sum_probs=64.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc---chhhhccCCcEEEEEEECCCh--hH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT---ITTAYYRGAMGIMLVYDITNE--KS   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~---~~~~~~~~~~~~ilv~d~~~~--~s   57 (83)
                      +||||++.++..+.++                  ..++|+||||+|||+|+.   .++.||++++++|+|||++++  ++
T Consensus        10 vGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~v~~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~   89 (331)
T 3r7w_B           10 CGKSSICKVVFHNMQPLDTLYLESTSNPSLEHFSTLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINA   89 (331)
T ss_dssp             SSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEEECSSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHH
T ss_pred             CCHHHHHHHHHcCCCCCccceecCeeeeeeEEEccEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHH
Confidence            6999999875543321                  237899999999999974   479999999999999999998  44


Q ss_pred             HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         58 FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        58 ~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+.+|++++.+.. +++|++|+||
T Consensus        90 ~~~l~~~l~~~~~~~-~~ipillvgN  114 (331)
T 3r7w_B           90 ITNLAMIIEYAYKVN-PSINIEVLIH  114 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCEEEEECC
T ss_pred             HHHHHHHHHHHhhcC-CCCcEEEEEE
Confidence            444445566665554 6899999998

>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=99.88  E-value=8.9e-23  Score=118.15  Aligned_cols=83  Identities=39%  Similarity=0.731  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..+++++|++|+|||++++++|+.
T Consensus        36 ~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  115 (200)
T 2o52_A           36 TGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNS  115 (200)
T ss_dssp             SSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHH
Confidence            6999999998876654                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.....+++|+++|||
T Consensus       116 ~~~~~~~~~~~~~~~~piilv~n  138 (200)
T 2o52_A          116 LAAWLTDARTLASPNIVVILCGN  138 (200)
T ss_dssp             HHHHHHHHHHHTCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887767899999997

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.88  E-value=4.8e-23  Score=119.03  Aligned_cols=83  Identities=47%  Similarity=0.875  Sum_probs=72.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        44 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  123 (199)
T 3l0i_B           44 VGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNN  123 (199)
T ss_dssp             SCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHH
Confidence            7999999999987765                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+......++|++||||
T Consensus       124 ~~~~~~~i~~~~~~~~p~ilv~n  146 (199)
T 3l0i_B          124 VKQWLQEIDRYASENVNKLLVGN  146 (199)
T ss_dssp             HHHHHHHHHSCC-CCSEEEEC-C
T ss_pred             HHHHHHHHHHhccCCCCEEEEEE
Confidence            99999999877667899999998

>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=99.88  E-value=5.9e-23  Score=118.77  Aligned_cols=83  Identities=12%  Similarity=0.163  Sum_probs=71.8

Q ss_pred             CCcceeeeeeccCcc--c------------------eEEEEEEEeCCCchhhhc-chhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCF--Q------------------HNFHINYRDTAGQERFRT-ITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~--~------------------~~~~l~i~Dt~g~~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++....+  .                  ..+++++|||+|++++.. +++.|+++++++|+|||+++++||+
T Consensus        34 vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~  113 (195)
T 3cbq_A           34 VGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFS  113 (195)
T ss_dssp             SSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHH
Confidence            799999999853221  1                  568999999999998865 8899999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ++..|+.++....+ .++|++||||
T Consensus       114 ~~~~~~~~i~~~~~~~~~piilv~n  138 (195)
T 3cbq_A          114 KVPETLLRLRAGRPHHDLPVILVGN  138 (195)
T ss_dssp             THHHHHHHHHHHSTTSCCCEEEEEE
T ss_pred             HHHHHHHHHHHhcCCCCCCEEEEee
Confidence            99999999987653 5899999997

>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=99.88  E-value=1.1e-22  Score=115.55  Aligned_cols=83  Identities=31%  Similarity=0.526  Sum_probs=73.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        17 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   96 (181)
T 3t5g_A           17 VGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI   96 (181)
T ss_dssp             SSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            6999999999876654                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. ..++|+++|||
T Consensus        97 ~~~~~~~~~~~~~~~~p~ilv~n  119 (181)
T 3t5g_A           97 KVIHGKLLDMVGKVQIPIMLVGN  119 (181)
T ss_dssp             HHHHHHHHHHC----CCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999997764 35899999997

>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=99.88  E-value=8.7e-23  Score=114.58  Aligned_cols=83  Identities=49%  Similarity=0.887  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..++++++++++|||++++++|+.
T Consensus        14 ~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   93 (170)
T 1g16_A           14 VGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTN   93 (170)
T ss_dssp             SSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHH
Confidence            6999999998876653                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+.+...++.|+++|+|
T Consensus        94 ~~~~~~~i~~~~~~~~piilv~n  116 (170)
T 1g16_A           94 IKQWFKTVNEHANDEAQLLLVGN  116 (170)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999888767899999997

>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=99.88  E-value=1.3e-22  Score=114.65  Aligned_cols=83  Identities=35%  Similarity=0.687  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++++.
T Consensus        26 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  105 (179)
T 1z0f_A           26 VGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNH  105 (179)
T ss_dssp             SSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHH
Confidence            6999999998876654                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....+++|+++|+|
T Consensus       106 ~~~~~~~~~~~~~~~~piilv~n  128 (179)
T 1z0f_A          106 LSSWLTDARNLTNPNTVIILIGN  128 (179)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887767899999997

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.88  E-value=1.8e-22  Score=114.28  Aligned_cols=82  Identities=43%  Similarity=0.815  Sum_probs=74.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        20 ~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   99 (181)
T 3tw8_B           20 VGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVN   99 (181)
T ss_dssp             SCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHH
Confidence            7999999999877654                    44789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.... +++|+++|||
T Consensus       100 ~~~~~~~~~~~~-~~~p~ilv~n  121 (181)
T 3tw8_B          100 VKRWLHEINQNC-DDVCRILVGN  121 (181)
T ss_dssp             HHHHHHHHHHHC-TTSEEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998876 6899999997

>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=99.88  E-value=1.1e-22  Score=115.35  Aligned_cols=83  Identities=46%  Similarity=0.790  Sum_probs=67.9

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                     ..+.+++|||+|++++..++..+++++|++++|||++++++|+
T Consensus        21 ~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~  100 (180)
T 2g6b_A           21 VGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFD  100 (180)
T ss_dssp             SSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHH
Confidence            6999999998776652                     3568999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+..|++++......++|+++|+|
T Consensus       101 ~~~~~~~~i~~~~~~~~piilv~n  124 (180)
T 2g6b_A          101 NIQAWLTEIHEYAQHDVALMLLGN  124 (180)
T ss_dssp             THHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHHhCCCCCcEEEEEE
Confidence            999999999887767899999997

>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=99.88  E-value=1.6e-22  Score=115.02  Aligned_cols=82  Identities=20%  Similarity=0.449  Sum_probs=73.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||++++++|+++
T Consensus        16 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   95 (186)
T 1mh1_A           16 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENV   95 (186)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHH
Confidence            6999999888766553                   567899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|+..+.+.. ++.|+++|||
T Consensus        96 ~~~~~~~~~~~~-~~~piilv~n  117 (186)
T 1mh1_A           96 RAKWYPEVRHHC-PNTPIILVGT  117 (186)
T ss_dssp             HHTHHHHHHHHS-TTSCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEeE
Confidence            7 7999998876 4899999997

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.88  E-value=8.2e-23  Score=117.60  Aligned_cols=83  Identities=42%  Similarity=0.759  Sum_probs=73.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..+++++|++|+|||++++++|+.
T Consensus        37 ~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~  116 (192)
T 2il1_A           37 VGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDD  116 (192)
T ss_dssp             SSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            6999999999877653                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+......++|++||||
T Consensus       117 ~~~~~~~i~~~~~~~~piilV~N  139 (192)
T 2il1_A          117 LPKWMKMIDKYASEDAELLLVGN  139 (192)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887767899999997

>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=99.88  E-value=5.7e-23  Score=118.74  Aligned_cols=83  Identities=42%  Similarity=0.746  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..+++++|++|+|||++++++|+.
T Consensus        39 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~  118 (199)
T 2p5s_A           39 VGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLN  118 (199)
T ss_dssp             SSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHH
Confidence            6999999999877653                    45779999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+......++|++||||
T Consensus       119 ~~~~~~~i~~~~~~~~piilv~N  141 (199)
T 2p5s_A          119 IREWVDMIEDAAHETVPIMLVGN  141 (199)
T ss_dssp             HHHHHHHHHHHC---CCEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887667899999997

>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=99.88  E-value=1.7e-23  Score=120.25  Aligned_cols=83  Identities=45%  Similarity=0.787  Sum_probs=76.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..++++++++++|||++++++|+.
T Consensus        34 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  113 (191)
T 3dz8_A           34 VGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNA  113 (191)
T ss_dssp             SSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHH
Confidence            6999999999877654                    34679999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.....+++|++||||
T Consensus       114 ~~~~~~~i~~~~~~~~piilv~n  136 (191)
T 3dz8_A          114 VQDWATQIKTYSWDNAQVILVGN  136 (191)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887778999999997

>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=99.88  E-value=1.5e-22  Score=115.99  Aligned_cols=83  Identities=42%  Similarity=0.769  Sum_probs=76.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        33 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~  112 (189)
T 2gf9_A           33 VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAA  112 (189)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHH
Confidence            6999999998877653                    46789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+...++.|+++|||
T Consensus       113 ~~~~~~~i~~~~~~~~piilv~n  135 (189)
T 2gf9_A          113 VQDWATQIKTYSWDNAQVILVGN  135 (189)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999997

>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=99.88  E-value=1.8e-22  Score=115.64  Aligned_cols=83  Identities=35%  Similarity=0.708  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhh-cchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~-~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++. .++..+++++|++++|||+++++||+
T Consensus        31 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~  110 (189)
T 1z06_A           31 VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFH  110 (189)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHH
Confidence            6999999998766653                    45789999999999998 89999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+..|++++.+.. ..++|+++|||
T Consensus       111 ~~~~~~~~i~~~~~~~~~piilv~n  135 (189)
T 1z06_A          111 SLPAWIEECKQHLLANDIPRILVGN  135 (189)
T ss_dssp             THHHHHHHHHHHCCCSCCCEEEEEE
T ss_pred             HHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            9999999998875 46899999997

>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=99.88  E-value=1.6e-22  Score=114.27  Aligned_cols=83  Identities=34%  Similarity=0.625  Sum_probs=75.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        25 ~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  104 (179)
T 2y8e_A           25 VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQ  104 (179)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            6999999998866554                    34689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++....+.++|+++|+|
T Consensus       105 ~~~~~~~i~~~~~~~~piilv~n  127 (179)
T 2y8e_A          105 TSKWIDDVRTERGSDVIIMLVGN  127 (179)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999999887767899999987

>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=99.88  E-value=7.6e-23  Score=116.10  Aligned_cols=82  Identities=26%  Similarity=0.525  Sum_probs=70.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||+++++||+++
T Consensus        19 ~GKssl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   98 (182)
T 3bwd_D           19 VGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV   98 (182)
T ss_dssp             SSHHHHHHHHHHSCCC----------CBCCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHH
Confidence            6999999999877654                   457788999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.+.. +++|+++|||
T Consensus        99 ~~~~~~~~~~~~-~~~piilv~n  120 (182)
T 3bwd_D           99 SKKWIPELKHYA-PGVPIVLVGT  120 (182)
T ss_dssp             HHTHHHHHHHHC-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEe
Confidence            7 7999998876 5899999997

>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=99.87  E-value=7e-23  Score=118.62  Aligned_cols=83  Identities=18%  Similarity=0.264  Sum_probs=68.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.+++.|++++|++++|||+++++||+++..|+
T Consensus        36 vGKSsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~  115 (198)
T 1f6b_A           36 AGKTTLLHMLKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEEL  115 (198)
T ss_dssp             SSHHHHHHHHSCC------CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccCCCCCceeEEEEECCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHH
Confidence            7999999999876543               2378999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..++|+++|||
T Consensus       116 ~~~~~~~~~~~~piilv~N  134 (198)
T 1f6b_A          116 DSLMTDETIANVPILILGN  134 (198)
T ss_dssp             HHHHTCGGGTTSCEEEEEE
T ss_pred             HHHHhCcccCCCcEEEEEE
Confidence            9887642 36899999998

>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=99.87  E-value=1.3e-22  Score=115.42  Aligned_cols=83  Identities=28%  Similarity=0.493  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||+++++||+.+
T Consensus        29 ~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  108 (183)
T 3kkq_A           29 VGKSALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHV  108 (183)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHhCCCCCCCCCCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            6999999998876654                   567899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+.++.+.. ..++|+++|||
T Consensus       109 ~~~~~~~~~~~~~~~~p~ilv~n  131 (183)
T 3kkq_A          109 DRFHQLILRVKDRESFPMILVAN  131 (183)
T ss_dssp             HHHHHHHHHHHTSSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            99999997743 47899999997

>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=99.87  E-value=1.1e-22  Score=119.05  Aligned_cols=82  Identities=29%  Similarity=0.573  Sum_probs=75.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+++|||+|++++..++..++++++++++|||+++++||+.
T Consensus        26 ~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~  105 (221)
T 3gj0_A           26 TGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKN  105 (221)
T ss_dssp             SSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHH
Confidence            7999999998776654                    55789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.+.. +++|+++|||
T Consensus       106 ~~~~~~~~~~~~-~~~p~ilv~n  127 (221)
T 3gj0_A          106 VPNWHRDLVRVC-ENIPIVLCGN  127 (221)
T ss_dssp             HHHHHHHHHHHS-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998876 6899999997

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.87  E-value=1.6e-22  Score=114.43  Aligned_cols=83  Identities=31%  Similarity=0.493  Sum_probs=72.7

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                     ..+.+++|||+|++++..++..+++++|++++|||++++++|+
T Consensus        17 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   96 (178)
T 2hxs_A           17 SGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFE   96 (178)
T ss_dssp             SSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHH
Confidence            6999999999877654                     2489999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC---CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS---ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~---~~~piilvgN   83 (83)
                      ++..|++++.+...   ..+|+++|||
T Consensus        97 ~~~~~~~~i~~~~~~~~~~~~iilv~n  123 (178)
T 2hxs_A           97 NLEDWYTVVKKVSEESETQPLVALVGN  123 (178)
T ss_dssp             THHHHHHHHHHHHHHHTCCCEEEEEEE
T ss_pred             HHHHHHHHHHHHhcccCCCCeEEEEEE
Confidence            99999999977532   3455889987

>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=99.87  E-value=1.7e-22  Score=113.25  Aligned_cols=83  Identities=16%  Similarity=0.133  Sum_probs=57.3

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.++....+.                  ..+.+++|||+|++++..++..+++.++++++|||+++++||+.+.
T Consensus        13 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   92 (166)
T 3q72_A           13 VGKSALARIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKAS   92 (166)
T ss_dssp             SSHHHHHHHHCCC----------CEEEEEEEETTEEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHH
T ss_pred             CCHHHHHHHHcCccccCCCCccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHH
Confidence            6999999998765442                  6678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-CCCceEEEEeC
Q psy16649         63 NWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .|+.++.+.. .+++|+++|||
T Consensus        93 ~~~~~~~~~~~~~~~p~ilv~n  114 (166)
T 3q72_A           93 ELRVQLRRARQTDDVPIILVGN  114 (166)
T ss_dssp             HHHHHHHHCC---CCCEEEEEE
T ss_pred             HHHHHHHHhcCCCCCCEEEEEe
Confidence            9999998753 36899999997

>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=99.87  E-value=3e-22  Score=113.18  Aligned_cols=83  Identities=31%  Similarity=0.579  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..++++++++++|||++++++|+.
T Consensus        18 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   97 (177)
T 1wms_A           18 VGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN   97 (177)
T ss_dssp             SSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHH
Confidence            6999999999876654                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC----CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS----ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~----~~~piilvgN   83 (83)
                      +..|++++.....    .++|+++|||
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~p~i~v~n  124 (177)
T 1wms_A           98 LSNWKKEFIYYADVKEPESFPFVILGN  124 (177)
T ss_dssp             HHHHHHHHHHHHTCSCTTTSCEEEEEE
T ss_pred             HHHHHHHHHHHccccccCCCcEEEEEE
Confidence            9999999987653    6799999997

>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=99.87  E-value=9.9e-23  Score=116.86  Aligned_cols=78  Identities=18%  Similarity=0.405  Sum_probs=69.9

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.++..+.|.                  ..+.+++|||+|+++++     ++++++++++|||+++++||+++.
T Consensus        31 vGKSsL~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~  105 (184)
T 3ihw_A           31 SGKSALVHRYLTGTYVQEESPEGGRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVY  105 (184)
T ss_dssp             SCHHHHHHHHHHSSCCCCCCTTCEEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCCcceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHH
Confidence            7999999998887754                  56899999999999887     888999999999999999999999


Q ss_pred             HHHHHHHHhcC-CCceEEEEeC
Q psy16649         63 NWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~~-~~~piilvgN   83 (83)
                      .|++++..... .++|++||||
T Consensus       106 ~~~~~i~~~~~~~~~piilv~n  127 (184)
T 3ihw_A          106 NYFLRLCSFRNASEVPMVLVGT  127 (184)
T ss_dssp             HHHHHHHTTSCGGGSCEEEEEE
T ss_pred             HHHHHHHHhcCCCCCCEEEEEE
Confidence            99999987653 6899999997

>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=99.87  E-value=2.6e-22  Score=116.56  Aligned_cols=82  Identities=18%  Similarity=0.443  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||++++++|+++
T Consensus        41 ~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  120 (204)
T 4gzl_A           41 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENV  120 (204)
T ss_dssp             SSHHHHHHHHHHSCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHH
Confidence            6999999888776654                   567888999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.... +++|+++|||
T Consensus       121 ~~~~~~~~~~~~-~~~piilv~n  142 (204)
T 4gzl_A          121 RAKWYPEVRHHC-PNTPIILVGT  142 (204)
T ss_dssp             HHTHHHHHHHHC-SSCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEe
Confidence            7 8999998876 7899999997

>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=99.87  E-value=1.1e-22  Score=113.76  Aligned_cols=83  Identities=14%  Similarity=0.336  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+++++|||+|+++++.++..+++++|++++|||+++++||+.+..|+
T Consensus        11 ~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~   90 (164)
T 1r8s_A           11 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREEL   90 (164)
T ss_dssp             SSHHHHHHHHHHHCSSCCCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCcCcccCcCceeEEEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999998766554               3478999999999999999999999999999999999999999999999


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .++... ..+++|+++|||
T Consensus        91 ~~~~~~~~~~~~piilv~n  109 (164)
T 1r8s_A           91 MRMLAEDELRDAVLLVFAN  109 (164)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHhchhhcCCeEEEEEE
Confidence            888653 236899999997

>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=99.87  E-value=1.3e-22  Score=118.57  Aligned_cols=82  Identities=27%  Similarity=0.546  Sum_probs=57.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|+++|..++..++++++++++|||+++++||+++
T Consensus        45 vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  124 (214)
T 2j1l_A           45 CGKTSLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNI  124 (214)
T ss_dssp             SSHHHHHHHHHC-------CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHH
Confidence            6999999999876654                   456899999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.+.. +++|++||||
T Consensus       125 ~~~~~~~~~~~~-~~~piilv~n  146 (214)
T 2j1l_A          125 FNRWYPEVNHFC-KKVPIIVVGC  146 (214)
T ss_dssp             HHTHHHHHHHHC-SSCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            7 7999998776 6899999997

>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=99.87  E-value=2e-22  Score=114.27  Aligned_cols=78  Identities=18%  Similarity=0.362  Sum_probs=67.3

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.++..+.|.                  ..+++++|||+|+++     ..|++++|++++|||+++++||+.+.
T Consensus        18 vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~~   92 (178)
T 2iwr_A           18 SGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDENSFQAVS   92 (178)
T ss_dssp             GCHHHHHHHHHHSCCCCCSSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCHHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCcCCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCHHHHHHHH
Confidence            6999999999887663                  457899999999987     57889999999999999999999999


Q ss_pred             HHHHHHHHhc---CCCceEEEEeC
Q psy16649         63 NWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~---~~~~piilvgN   83 (83)
                      .|++.+....   .+++|++||||
T Consensus        93 ~~~~~i~~~~~~~~~~~piilv~n  116 (178)
T 2iwr_A           93 RLHGQLSSLRGEGRGGLALALVGT  116 (178)
T ss_dssp             HHHHHHHHHHCSSSCCCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEEE
Confidence            9877766543   36899999997

>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=99.87  E-value=3.9e-22  Score=116.35  Aligned_cols=83  Identities=25%  Similarity=0.524  Sum_probs=76.2

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                     ..+.+.+|||+|++++..++..+++++|++|+|||++++.+|+
T Consensus        22 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~  101 (218)
T 4djt_A           22 VGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQ  101 (218)
T ss_dssp             SSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHH
Confidence            7999999999977654                     2278999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..|++++....+.+.|+++|||
T Consensus       102 ~~~~~~~~~~~~~~~~~piilv~n  125 (218)
T 4djt_A          102 NLARWVKEFQAVVGNEAPIVVCAN  125 (218)
T ss_dssp             THHHHHHHHHHHHCSSSCEEEEEE
T ss_pred             HHHHHHHHHHHhcCCCCCEEEEEE
Confidence            999999999988767799999997

>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=99.87  E-value=2.4e-22  Score=115.68  Aligned_cols=83  Identities=19%  Similarity=0.295  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+++++|||+|+++++.++..+++++|++++|||+++++||+++..|+
T Consensus        34 vGKSsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  113 (190)
T 1m2o_B           34 AGKTTLLHMLKNDRLATLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVEL  113 (190)
T ss_dssp             SSHHHHHHHHHHSCCCCCCCCCSCEEEEEEETTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccccCCCCCeEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHH
Confidence            6999999999876554               2378999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..++|+++|||
T Consensus       114 ~~~~~~~~~~~~piilv~N  132 (190)
T 1m2o_B          114 DALFNIAELKDVPFVILGN  132 (190)
T ss_dssp             HHHHTCGGGTTCCEEEEEE
T ss_pred             HHHHcchhhcCCCEEEEEE
Confidence            9887642 36899999997

>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=99.87  E-value=2.7e-22  Score=115.17  Aligned_cols=83  Identities=36%  Similarity=0.697  Sum_probs=75.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..++++++++|+|||++++.+|+.
T Consensus        36 ~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~  115 (193)
T 2oil_A           36 VGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAV  115 (193)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHH
Confidence            6999999998876654                    45788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++......++|+++|||
T Consensus       116 ~~~~l~~i~~~~~~~~piilv~n  138 (193)
T 2oil_A          116 VERWLKELYDHAEATIVVMLVGN  138 (193)
T ss_dssp             HHHHHHHHHTTSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCeEEEEEE
Confidence            99999999877667899999997

>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=99.87  E-value=5.4e-22  Score=114.86  Aligned_cols=82  Identities=24%  Similarity=0.478  Sum_probs=73.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||++++++|+++
T Consensus        36 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  115 (201)
T 2gco_A           36 CGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENI  115 (201)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCcCCcccCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHH
Confidence            6999999998876553                   457899999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|.+.+.+.. +++|+++|||
T Consensus       116 ~~~~~~~~~~~~-~~~piilv~n  137 (201)
T 2gco_A          116 PEKWTPEVKHFC-PNVPIILVGN  137 (201)
T ss_dssp             HHTHHHHHHHHS-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEe
Confidence             68999888766 6899999997

>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=99.87  E-value=5.4e-22  Score=115.13  Aligned_cols=83  Identities=48%  Similarity=0.886  Sum_probs=75.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        31 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~  110 (213)
T 3cph_A           31 VGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTN  110 (213)
T ss_dssp             SSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHH
Confidence            6999999998876653                    34789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+......++|+++|+|
T Consensus       111 ~~~~~~~i~~~~~~~~piilv~n  133 (213)
T 3cph_A          111 IKQWFKTVNEHANDEAQLLLVGN  133 (213)
T ss_dssp             HHHHHHHHHHHTTTCSEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEE
Confidence            99999999887767899999987

>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=99.87  E-value=2.3e-22  Score=112.99  Aligned_cols=83  Identities=12%  Similarity=0.165  Sum_probs=66.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhc-chhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRT-ITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++.. ++..+++++|++++|||+++++||+
T Consensus        13 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   92 (169)
T 3q85_A           13 VGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFS   92 (169)
T ss_dssp             SSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHH
Confidence            7999999998654433                    568999999999999876 8888999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      .+..|+.++....+ +++|+++|||
T Consensus        93 ~~~~~~~~~~~~~~~~~~p~ilv~n  117 (169)
T 3q85_A           93 KVPETLLRLRAGRPHHDLPVILVGN  117 (169)
T ss_dssp             THHHHHHHHHHHSTTSCCCEEEEEE
T ss_pred             HHHHHHHHHHhcccCCCCCEEEEee
Confidence            99999999988764 5899999997

>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=99.87  E-value=4.4e-22  Score=112.65  Aligned_cols=83  Identities=28%  Similarity=0.508  Sum_probs=73.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        20 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   99 (181)
T 2fn4_A           20 VGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEV   99 (181)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCcCccccCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHH
Confidence            6999999998776543                   357899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh-cCCCceEEEEeC
Q psy16649         62 KNWIRNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~-~~~~~piilvgN   83 (83)
                      ..|+.++.+. ...++|+++|||
T Consensus       100 ~~~~~~~~~~~~~~~~piilv~n  122 (181)
T 2fn4_A          100 GKLFTQILRVKDRDDFPVVLVGN  122 (181)
T ss_dssp             HHHHHHHHHHHTSSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            9999998554 446899999997

>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=99.87  E-value=4.9e-22  Score=111.31  Aligned_cols=82  Identities=33%  Similarity=0.620  Sum_probs=74.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +||||++.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        16 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   95 (168)
T 1z2a_A           16 VGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEA   95 (168)
T ss_dssp             SSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            6999999998876654                    36789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.... ++.|+++|+|
T Consensus        96 ~~~~~~~i~~~~-~~~piilv~n  117 (168)
T 1z2a_A           96 ISSWREKVVAEV-GDIPTALVQN  117 (168)
T ss_dssp             HHHHHHHHHHHH-CSCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence            999999998876 7899999987

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.86  E-value=3.9e-22  Score=114.63  Aligned_cols=83  Identities=18%  Similarity=0.280  Sum_probs=72.3

Q ss_pred             CCcceeeeeeccCccce-----------------EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQH-----------------NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN   63 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~-----------------~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~   63 (83)
                      +|||||+.++..+.+..                 .+.+++|||+|++++..++..+++++|++|+|||+++++||+++..
T Consensus        28 ~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~  107 (199)
T 4bas_A           28 SGKTTIINQVKPAQSSSKHITATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKS  107 (199)
T ss_dssp             SCHHHHHHHHSCCC----CCCCCSSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHH
T ss_pred             CCHHHHHHHHhcCCCcccccccccceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHH
Confidence            79999999998877653                 4789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcC--------CCceEEEEeC
Q psy16649         64 WIRNIEENAS--------ANVEKMLLGN   83 (83)
Q Consensus        64 w~~~~~~~~~--------~~~piilvgN   83 (83)
                      |+.++.+...        +++|++||||
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~piilv~N  135 (199)
T 4bas_A          108 EIQAMLKHEDIRRELPGGGRVPFLFFAN  135 (199)
T ss_dssp             HHHHHHTSHHHHSBCTTSCBCCEEEEEE
T ss_pred             HHHHHHhChhhhhcccccCCCCEEEEEE
Confidence            9888865421        3899999997

>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=99.86  E-value=4.6e-22  Score=111.17  Aligned_cols=83  Identities=33%  Similarity=0.519  Sum_probs=72.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+.+|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        15 ~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   94 (168)
T 1u8z_A           15 VGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT   94 (168)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHH
Confidence            6999999998876654                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|++++.+... .++|+++|+|
T Consensus        95 ~~~~~~i~~~~~~~~~piilv~n  117 (168)
T 1u8z_A           95 ADFREQILRVKEDENVPFLLVGN  117 (168)
T ss_dssp             HHHHHHHHHHHCCTTSCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            999999988764 5899999997

>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=99.86  E-value=2.4e-22  Score=112.50  Aligned_cols=83  Identities=29%  Similarity=0.551  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..++++++++++|||+++++||+.+
T Consensus        14 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   93 (167)
T 1c1y_A           14 VGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDL   93 (167)
T ss_dssp             SSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHcCCCCCCCCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHH
Confidence            6999999999877654                   367899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. .++.|+++|||
T Consensus        94 ~~~~~~i~~~~~~~~~piilv~n  116 (167)
T 1c1y_A           94 QDLREQILRVKDTEDVPMILVGN  116 (167)
T ss_dssp             HHHHHHHHHHHCCSCCCEEEEEE
T ss_pred             HHHHHHHHHhhCcCCCcEEEEEE
Confidence            99999988754 36899999997

>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=99.86  E-value=3.4e-22  Score=114.20  Aligned_cols=83  Identities=19%  Similarity=0.335  Sum_probs=72.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+++..|+
T Consensus        27 vGKSsL~~~l~~~~~~~~~~t~g~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~  106 (181)
T 1fzq_A           27 AGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQEL  106 (181)
T ss_dssp             SSHHHHHHHHCCSCCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCcccCcCCeEEEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHH
Confidence            6999999999877543               2467999999999999999999999999999999999999999999998


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .++.+. ...++|+++|||
T Consensus       107 ~~~~~~~~~~~~piilv~N  125 (181)
T 1fzq_A          107 TELLEEEKLSCVPVLIFAN  125 (181)
T ss_dssp             HHHTTCGGGTTCCEEEEEE
T ss_pred             HHHHhChhhcCCCEEEEEE
Confidence            887553 236899999997

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.86  E-value=3.4e-22  Score=115.61  Aligned_cols=83  Identities=30%  Similarity=0.556  Sum_probs=72.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        35 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  114 (201)
T 3oes_A           35 VGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVI  114 (201)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHH
Confidence            6999999999887764                   457889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+.++.+.. ..++|++||||
T Consensus       115 ~~~~~~i~~~~~~~~~piilv~n  137 (201)
T 3oes_A          115 ESLYQKLHEGHGKTRVPVVLVGN  137 (201)
T ss_dssp             HHHHHHHHC-----CCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999997754 35799999997

>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=99.86  E-value=9.3e-22  Score=114.29  Aligned_cols=82  Identities=22%  Similarity=0.462  Sum_probs=74.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+.+|||+|++++..++..+++++|++++|||++++++|+++
T Consensus        36 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  115 (207)
T 2fv8_A           36 CGKTCLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENI  115 (207)
T ss_dssp             SSHHHHHHHHHHSSCC-------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCcCCCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHH
Confidence            7999999998876654                   457899999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 -KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 -~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ..|++.+.... ++.|+++|||
T Consensus       116 ~~~~~~~~~~~~-~~~piilv~n  137 (207)
T 2fv8_A          116 PEKWVPEVKHFC-PNVPIILVAN  137 (207)
T ss_dssp             HHTHHHHHHHHS-TTCCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCCEEEEEE
Confidence             68999988765 6899999997

>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=99.86  E-value=3.8e-22  Score=112.98  Aligned_cols=83  Identities=36%  Similarity=0.590  Sum_probs=64.6

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +||||++.++..+.+.                     ..+.+.+|||+|++++..++..+++++|++++|||++++++|+
T Consensus        19 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   98 (182)
T 1ky3_A           19 VGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFE   98 (182)
T ss_dssp             SSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHH
T ss_pred             CCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHH
Confidence            6999999998776653                     2468999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC----CCceEEEEeC
Q psy16649         60 NIKNWIRNIEENAS----ANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~----~~~piilvgN   83 (83)
                      .+..|++++.....    .++|+++|||
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~p~ilv~n  126 (182)
T 1ky3_A           99 NIKSWRDEFLVHANVNSPETFPFVILGN  126 (182)
T ss_dssp             THHHHHHHHHHHHCCSCTTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHhcccCcCCCcEEEEEE
Confidence            99999999987653    6899999997

>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=99.86  E-value=6.4e-22  Score=113.29  Aligned_cols=83  Identities=40%  Similarity=0.768  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.
T Consensus        26 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~  105 (195)
T 1x3s_A           26 VGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVK  105 (195)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHH
Confidence            6999999999877654                    45789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +..|++++.+.. ..++|+++|+|
T Consensus       106 ~~~~~~~i~~~~~~~~~p~ilv~n  129 (195)
T 1x3s_A          106 LDNWLNELETYCTRNDIVNMLVGN  129 (195)
T ss_dssp             HHHHHHHHTTCCSCSCCEEEEEEE
T ss_pred             HHHHHHHHHHhcCcCCCcEEEEEE
Confidence            999999998764 36799999987

>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=99.86  E-value=8.5e-22  Score=112.22  Aligned_cols=83  Identities=31%  Similarity=0.568  Sum_probs=72.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|++++..++..+++.++++++|||++++++|+.+
T Consensus        15 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   94 (189)
T 4dsu_A           15 VGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI   94 (189)
T ss_dssp             SSHHHHHHHHHHSSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH
Confidence            6999999998876654                   557799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+..+.... ..++|+++|||
T Consensus        95 ~~~~~~~~~~~~~~~~p~i~v~n  117 (189)
T 4dsu_A           95 HHYREQIKRVKDSEDVPMVLVGN  117 (189)
T ss_dssp             HHHHHHHHHHTTCSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            99999998854 36899999997

>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=99.86  E-value=5e-22  Score=114.48  Aligned_cols=83  Identities=14%  Similarity=0.336  Sum_probs=68.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+.+..|+
T Consensus        40 vGKSsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l  119 (192)
T 2b6h_A           40 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADEL  119 (192)
T ss_dssp             SSHHHHHHHHCSSCCEEEEEETTEEEEEEEETTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHHhCCccccCCcCceeEEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999999877665               3468999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. .+++|+++|||
T Consensus       120 ~~~~~~~~~~~~piilv~N  138 (192)
T 2b6h_A          120 QKMLQEDELRDAVLLVFAN  138 (192)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHhcccccCCCeEEEEEE
Confidence            8886532 36899999997

>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=99.86  E-value=5.8e-22  Score=113.38  Aligned_cols=83  Identities=17%  Similarity=0.233  Sum_probs=70.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||+++++||+++..|+
T Consensus        27 ~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~  106 (187)
T 1zj6_A           27 AGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREEL  106 (187)
T ss_dssp             SSHHHHHHHHHTTSCEEEECCSCSSCEEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCcCcCCCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            7999999999876654               3468999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|+++|||
T Consensus       107 ~~~~~~~~~~~~piilv~N  125 (187)
T 1zj6_A          107 YKMLAHEDLRKAGLLIFAN  125 (187)
T ss_dssp             HHHHTSGGGTTCEEEEEEE
T ss_pred             HHHHhchhhCCCeEEEEEE
Confidence            9887653 36899999997

>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=99.86  E-value=6.8e-22  Score=112.70  Aligned_cols=83  Identities=17%  Similarity=0.233  Sum_probs=73.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+++..|+
T Consensus        32 ~GKSsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~  111 (181)
T 2h17_A           32 AGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREEL  111 (181)
T ss_dssp             SSHHHHHHHHHTTSCEEEECCSSSSCEEEEETTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccCCcCceeeEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999999877663               3378999999999999999999999999999999999999999999998


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..++|+++|||
T Consensus       112 ~~~~~~~~~~~~piilv~N  130 (181)
T 2h17_A          112 YKMLAHEDLRKAGLLIFAN  130 (181)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHhChhhCCCeEEEEEE
Confidence            8887642 36899999997

>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=99.86  E-value=5.7e-22  Score=113.66  Aligned_cols=83  Identities=29%  Similarity=0.480  Sum_probs=73.8

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      +|||||+.++..+.+.                ..+.+++|||+|++++..++..+++++|++++|||++++++|+.+..|
T Consensus        33 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~  112 (188)
T 1zd9_A           33 SGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNE  112 (188)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCccCCCCceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHH
Confidence            6999999999877664                246899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CCCceEEEEeC
Q psy16649         65 IRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~~-~~~~piilvgN   83 (83)
                      +.++.+.. ..++|+++|||
T Consensus       113 ~~~~~~~~~~~~~piilv~N  132 (188)
T 1zd9_A          113 LHNLLDKPQLQGIPVLVLGN  132 (188)
T ss_dssp             HHHHHTCGGGTTCCEEEEEE
T ss_pred             HHHHHhCcccCCCCEEEEEE
Confidence            98886642 36899999997

>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=99.86  E-value=1.1e-21  Score=109.59  Aligned_cols=83  Identities=31%  Similarity=0.515  Sum_probs=74.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        14 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   93 (167)
T 1kao_A           14 VGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDI   93 (167)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCcccCCCCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHH
Confidence            6999999998877654                   456799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|..++.+.. ..+.|+++|+|
T Consensus        94 ~~~~~~i~~~~~~~~~piilv~n  116 (167)
T 1kao_A           94 KPMRDQIIRVKRYEKVPVILVGN  116 (167)
T ss_dssp             HHHHHHHHHHTTTSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999987764 36899999997

>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=99.85  E-value=1.1e-21  Score=110.62  Aligned_cols=83  Identities=17%  Similarity=0.214  Sum_probs=65.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--hhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--FRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|+++  +..+...+++.++++++|||+++++||+
T Consensus        15 vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~   94 (175)
T 2nzj_A           15 VGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFE   94 (175)
T ss_dssp             SSHHHHHHHHHCC-----CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHH
T ss_pred             ccHHHHHHHHhcCCCccccCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHH
Confidence            6999999998776653                   457899999999998  6778889999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+..|+.++.+.. .+++|+++|||
T Consensus        95 ~~~~~~~~l~~~~~~~~~piilv~N  119 (175)
T 2nzj_A           95 SASELRIQLRRTHQADHVPIILVGN  119 (175)
T ss_dssp             HHHHHHHHHHHCC----CCEEEEEE
T ss_pred             HHHHHHHHHHHhhccCCCCEEEEEE
Confidence            9999999988753 36899999997

>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=99.85  E-value=8.3e-22  Score=110.76  Aligned_cols=83  Identities=16%  Similarity=0.224  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+.+..|+
T Consensus        18 ~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~   97 (171)
T 1upt_A           18 AGKTTILYRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSEL   97 (171)
T ss_dssp             SSHHHHHHHHHHSSCCCCCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCcCCcCccceEEEEECCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999999876654               3478999999999999999999999999999999999999999999998


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|+++|+|
T Consensus        98 ~~~~~~~~~~~~piilv~n  116 (171)
T 1upt_A           98 VAMLEEEELRKAILVVFAN  116 (171)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHhchhhCCCEEEEEEE
Confidence            8876543 26899999997

>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=99.85  E-value=9.5e-22  Score=113.68  Aligned_cols=83  Identities=34%  Similarity=0.543  Sum_probs=74.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.+.                    ..+.+.+|||+|++++..++..+++++|++|+|||++++++|+.
T Consensus        19 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   98 (207)
T 1vg8_A           19 VGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKT   98 (207)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHH
Confidence            6999999998776643                    35789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC----CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS----ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~----~~~piilvgN   83 (83)
                      +..|+.++.....    .++|+++|||
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~piilv~n  125 (207)
T 1vg8_A           99 LDSWRDEFLIQASPRDPENFPFVVLGN  125 (207)
T ss_dssp             HHHHHHHHHHHHCCSSGGGSCEEEEEE
T ss_pred             HHHHHHHHHHhcccccCCCCcEEEEEE
Confidence            9999999887653    5789999997

>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=99.85  E-value=1.3e-21  Score=112.95  Aligned_cols=83  Identities=33%  Similarity=0.519  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+.+|||+|++++..++..++++++++++|||++++++|+.+
T Consensus        25 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~  104 (206)
T 2bov_A           25 VGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT  104 (206)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            6999999999876654                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|+.++..... .++|+++|||
T Consensus       105 ~~~~~~i~~~~~~~~~piilv~n  127 (206)
T 2bov_A          105 ADFREQILRVKEDENVPFLLVGN  127 (206)
T ss_dssp             HHHHHHHHHHTTCSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEe
Confidence            999999988653 5899999997

>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=99.85  E-value=1.4e-21  Score=111.09  Aligned_cols=83  Identities=33%  Similarity=0.519  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+.+|||+|++++..++..+++.++++++|||++++++|+.+
T Consensus        29 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  108 (187)
T 2a9k_A           29 VGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT  108 (187)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhhCCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHH
Confidence            6999999998876654                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|++++.+... .++|+++|+|
T Consensus       109 ~~~~~~i~~~~~~~~~piilv~n  131 (187)
T 2a9k_A          109 ADFREQILRVKEDENVPFLLVGN  131 (187)
T ss_dssp             HHHHHHHHHHHCCTTCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEE
Confidence            999999988764 5899999987

>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=99.85  E-value=1.6e-21  Score=111.82  Aligned_cols=83  Identities=17%  Similarity=0.298  Sum_probs=73.6

Q ss_pred             CCcceeeeeeccCc-cc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHH
Q psy16649          1 SGENLCTLQIFRGC-FQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKN   63 (83)
Q Consensus         1 ~GKss~~~~~~~~~-~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~   63 (83)
                      +|||||+.++..+. +.                ..+.+.+|||+|+++++.++..+++++|++++|||+++++||+.+..
T Consensus        32 ~GKSsli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~  111 (190)
T 2h57_A           32 SGKTTIINKLKPSNAQSQNILPTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKE  111 (190)
T ss_dssp             SSHHHHHHHTSCGGGCCSSCCCCSSEEEEEEECSSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCCcCCccceeEEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHH
Confidence            79999999998776 32                33689999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcC---CCceEEEEeC
Q psy16649         64 WIRNIEENAS---ANVEKMLLGN   83 (83)
Q Consensus        64 w~~~~~~~~~---~~~piilvgN   83 (83)
                      |+.++.+...   .+.|+++|+|
T Consensus       112 ~~~~~~~~~~~~~~~~piilv~n  134 (190)
T 2h57_A          112 ELDTLLNHPDIKHRRIPILFFAN  134 (190)
T ss_dssp             HHHHHHHSTTTTTSCCCEEEEEE
T ss_pred             HHHHHHhChhhccCCCeEEEEEe
Confidence            9998877543   5799999997

>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=99.85  E-value=2e-21  Score=110.87  Aligned_cols=83  Identities=43%  Similarity=0.761  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc---------------------e---------EEEEEEEeCCCchhhhcchhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------H---------NFHINYRDTAGQERFRTITTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~---------~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++..+.+.                     .         .+.+++|||+|++++..++..+++++|++++||
T Consensus        22 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~  101 (195)
T 3bc1_A           22 VGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLF  101 (195)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEE
T ss_pred             CCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEE
Confidence            6999999998866553                     1         578999999999999999999999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      |++++++++.+..|++++..... .++|+++|+|
T Consensus       102 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~n  135 (195)
T 3bc1_A          102 DLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGN  135 (195)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEE
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence            99999999999999999988764 6899999987

>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=99.85  E-value=5.5e-22  Score=113.55  Aligned_cols=66  Identities=20%  Similarity=0.262  Sum_probs=59.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECC------ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDIT------NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~------~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+++|||+|+++|..+++.+++++|++|+|||++      ++++|+.+..|+.+++.. .+++|++||||
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~-~~~~piilv~N  143 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLT-LDDVPIVIQVN  143 (198)
T ss_dssp             CEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCC-TTSSCEEEEEE
T ss_pred             CceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccc-cCCCCEEEEEE
Confidence            4578999999999999999999999999999999999      678889999999888433 37899999997

>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=99.85  E-value=1.8e-21  Score=111.01  Aligned_cols=83  Identities=16%  Similarity=0.318  Sum_probs=72.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+...               ..+.+++|||+|++++..++..+++++|++++|||+++++||+++..|+
T Consensus        29 ~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~  108 (186)
T 1ksh_A           29 AGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQREL  108 (186)
T ss_dssp             SSHHHHHHHHTTCCCSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCcccccCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHH
Confidence            6999999998866532               3478999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. .+++|+++|||
T Consensus       109 ~~~~~~~~~~~~piilv~n  127 (186)
T 1ksh_A          109 QSLLVEERLAGATLLIFAN  127 (186)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHhChhcCCCcEEEEEe
Confidence            8886642 36899999997

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.85  E-value=1.1e-21  Score=110.05  Aligned_cols=83  Identities=25%  Similarity=0.444  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+.+|||+|++++..++..+++.++++++|||++++++++.+
T Consensus        14 ~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~   93 (172)
T 2erx_A           14 VGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEEL   93 (172)
T ss_dssp             SSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHH
Confidence            6999999999877653                   456899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC--CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      ..|+..+.+...  ++.|+++|+|
T Consensus        94 ~~~~~~i~~~~~~~~~~pii~v~n  117 (172)
T 2erx_A           94 KPIYEQICEIKGDVESIPIMLVGN  117 (172)
T ss_dssp             HHHHHHHHHHHC---CCCEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCEEEEEE
Confidence            999988877543  5799999987

>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=99.85  E-value=2.1e-21  Score=113.97  Aligned_cols=83  Identities=14%  Similarity=0.181  Sum_probs=70.2

Q ss_pred             CCcceeeeeeccCc--cc-------------------eEEEEEEEeCCCchh-hhcchhhhccCCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGC--FQ-------------------HNFHINYRDTAGQER-FRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~--~~-------------------~~~~l~i~Dt~g~~~-~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      +|||||+.+|....  |.                   ..+.+.+|||+|++. ++.+.+.|++.++++|+|||+++++||
T Consensus        48 vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf  127 (211)
T 2g3y_A           48 VGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASF  127 (211)
T ss_dssp             SSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHH
T ss_pred             CCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHH
Confidence            69999999987422  11                   457789999999987 677888999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +++..|..++.+.. .+++|++||||
T Consensus       128 ~~~~~~~~~l~~~~~~~~~piilVgN  153 (211)
T 2g3y_A          128 EKASELRIQLRRARQTEDIPIILVGN  153 (211)
T ss_dssp             HHHHHHHHHHHTSGGGTTSCEEEEEE
T ss_pred             HHHHHHHHHHHHHhCCCCCcEEEEEE
Confidence            99999998887642 35899999998

>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=99.85  E-value=7.2e-22  Score=115.18  Aligned_cols=83  Identities=40%  Similarity=0.767  Sum_probs=74.1

Q ss_pred             CCcceeeeeeccCccc--------------------e----------EEEEEEEeCCCchhhhcchhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------H----------NFHINYRDTAGQERFRTITTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~----------~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++..+.+.                    .          .+.+++|||+|+++|..++..+++++|++|+||
T Consensus        36 ~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~  115 (217)
T 2f7s_A           36 VGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMF  115 (217)
T ss_dssp             SSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEE
Confidence            6999999999877654                    1          578999999999999999999999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      |++++++|+.+..|++++..... .++|++||+|
T Consensus       116 D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~N  149 (217)
T 2f7s_A          116 DLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGN  149 (217)
T ss_dssp             ETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEE
T ss_pred             ECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEE
Confidence            99999999999999988876553 6899999997

>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=99.84  E-value=4.5e-21  Score=109.69  Aligned_cols=83  Identities=30%  Similarity=0.533  Sum_probs=63.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+.+|||+|++++..++..+++.++++++|||++++++|+++
T Consensus        32 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  111 (190)
T 3con_A           32 VGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADI  111 (190)
T ss_dssp             SSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCccccCCccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHH
Confidence            6999999999876653                   457799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|++++..... .++|+++|+|
T Consensus       112 ~~~~~~i~~~~~~~~~p~ilv~n  134 (190)
T 3con_A          112 NLYREQIKRVKDSDDVPMVLVGN  134 (190)
T ss_dssp             HHHHHHHHHHHTCSCCCEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEE
Confidence            999999987653 5799999987

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.84  E-value=5.4e-21  Score=109.61  Aligned_cols=63  Identities=35%  Similarity=0.703  Sum_probs=59.6

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+|||+|++++..++..+++.+|++++|||++++++|+.+..|+.++.+..+  .|+++|+|
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~N  155 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVAN  155 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEE
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEE
Confidence            8999999999999999999999999999999999999999999999999988763  99999987

>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=99.84  E-value=1.4e-21  Score=112.74  Aligned_cols=82  Identities=15%  Similarity=0.208  Sum_probs=67.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcch---hhhccCCcEEEEEEECCCh--
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTIT---TAYYRGAMGIMLVYDITNE--   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~---~~~~~~~~~~ilv~d~~~~--   55 (83)
                      +|||||+.++......                    ..+.+++|||+|+++|..+.   ..++++++++|+|||++++  
T Consensus        31 vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~  110 (196)
T 3llu_A           31 SGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYM  110 (196)
T ss_dssp             SSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCH
T ss_pred             CCHHHHHHHHHhcCCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchH
Confidence            6999997754432111                    23689999999999998877   8999999999999999998  


Q ss_pred             hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++++.+..|+.++.... +++|++||||
T Consensus       111 ~~~~~~~~~l~~~~~~~-~~~piilv~n  137 (196)
T 3llu_A          111 EALTRLHITVSKAYKVN-PDMNFEVFIH  137 (196)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCEEEEEEE
T ss_pred             HHHHHHHHHHHHHHhcC-CCCcEEEEEe
Confidence            78888888888876554 6899999998

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.84  E-value=1e-21  Score=112.38  Aligned_cols=83  Identities=16%  Similarity=0.244  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+++..|+
T Consensus        33 ~GKssli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~  112 (189)
T 2x77_A           33 AGKTSILYRLHLGDVVTTVPTVGVNLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHEL  112 (189)
T ss_dssp             SSHHHHHHHTCCSCCEEECSSTTCCEEEEEETTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCcCCCCceEEEEEEECCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHH
Confidence            7999999999877664               3478999999999999999999999999999999999999999999998


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... .++.|+++|+|
T Consensus       113 ~~~~~~~~~~~~piilv~n  131 (189)
T 2x77_A          113 YALLDEDELRKSLLLIFAN  131 (189)
T ss_dssp             HHHHTCSTTTTCEEEEEEE
T ss_pred             HHHHhhhhcCCCeEEEEEE
Confidence            8876543 36899999997

>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=99.84  E-value=2.1e-21  Score=111.79  Aligned_cols=82  Identities=29%  Similarity=0.417  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+++|||+|+++ ..++..+++.++++++|||+++++||+.+
T Consensus        39 vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~  117 (196)
T 2atv_A           39 VGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEV  117 (196)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHhCCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHH
Confidence            6999999999877654                   457899999999988 78899999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++.+.+.. ..++|+++|||
T Consensus       118 ~~~~~~i~~~~~~~~~piilv~N  140 (196)
T 2atv_A          118 LPLKNILDEIKKPKNVTLILVGN  140 (196)
T ss_dssp             HHHHHHHHHHHTTSCCCEEEEEE
T ss_pred             HHHHHHHHHhhCCCCCcEEEEEE
Confidence            99999998754 36899999997

>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=99.84  E-value=9e-22  Score=112.61  Aligned_cols=82  Identities=24%  Similarity=0.425  Sum_probs=70.1

Q ss_pred             CCcceeeeeeccC--ccc-----------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRG--CFQ-----------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~--~~~-----------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||+.++...  .+.                       ..+.+++|||+|+++|..+++.|+++++++++|||++++
T Consensus        13 vGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   92 (184)
T 2zej_A           13 SGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKG   92 (184)
T ss_dssp             SSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGC
T ss_pred             CCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcc
Confidence            7999999998763  221                       245789999999999999999999999999999999997


Q ss_pred             -hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 -KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 -~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                       .+|+++..|+.++.... +++|++||||
T Consensus        93 ~~s~~~~~~~~~~~~~~~-~~~piilv~n  120 (184)
T 2zej_A           93 QAEVDAMKPWLFNIKARA-SSSPVILVGT  120 (184)
T ss_dssp             HHHHHTHHHHHHHHHHHC-TTCEEEEEEE
T ss_pred             hhHHHHHHHHHHHHHhhC-CCCcEEEEEE
Confidence             58999999999998765 5899999997

>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=99.84  E-value=5.1e-21  Score=106.61  Aligned_cols=83  Identities=30%  Similarity=0.558  Sum_probs=74.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+.+|||+|++++..++..+++.++++++|||++++++++.+
T Consensus        14 ~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~   93 (166)
T 2ce2_X           14 VGKSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI   93 (166)
T ss_dssp             SSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCcCccccCCccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHH
Confidence            7999999998766553                   457899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|++++.+... .++|+++|+|
T Consensus        94 ~~~~~~i~~~~~~~~~p~iiv~n  116 (166)
T 2ce2_X           94 HQYREQIKRVKDSDDVPMVLVGN  116 (166)
T ss_dssp             HHHHHHHHHHHTCSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEE
Confidence            999999988653 4799999987

>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=99.84  E-value=2.8e-21  Score=111.04  Aligned_cols=83  Identities=20%  Similarity=0.416  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.+.                   ..+.+.+|||+|++++..++..+++++|++++|||++++++|+.+
T Consensus        19 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   98 (199)
T 2gf0_A           19 VGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEEL   98 (199)
T ss_dssp             SSHHHHHHHHHHSCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT
T ss_pred             CcHHHHHHHHHcCCCCCcccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHH
Confidence            6999999999876654                   356899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC--CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      ..|+..+.+...  +++|+++|||
T Consensus        99 ~~~~~~i~~~~~~~~~~piilv~n  122 (199)
T 2gf0_A           99 GPIYKLIVQIKGSVEDIPVMLVGN  122 (199)
T ss_dssp             HHHHHHHHHHHSCGGGSCEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEEE
Confidence            999888877543  4789999997

>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=99.84  E-value=2e-21  Score=110.37  Aligned_cols=83  Identities=17%  Similarity=0.312  Sum_probs=69.9

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +||||++.++..+.+.               ..+.+++|||+|+++++.++..+++++|++++|||++++++|+++..|+
T Consensus        29 ~GKssli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~  108 (183)
T 1moz_A           29 AGKTTILYRLQIGEVVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKEL  108 (183)
T ss_dssp             SSHHHHHHHTCCSEEEEECSSTTCCEEEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCcCccCCcCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            6999999999876653               2478899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.+.. ..+.|+++|+|
T Consensus       109 ~~~~~~~~~~~~piilv~n  127 (183)
T 1moz_A          109 HLMLQEEELQDAALLVFAN  127 (183)
T ss_dssp             HHHTTSSTTSSCEEEEEEE
T ss_pred             HHHHcChhhCCCeEEEEEE
Confidence            8887653 36899999997

>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=99.83  E-value=6.1e-21  Score=110.06  Aligned_cols=83  Identities=14%  Similarity=0.181  Sum_probs=67.7

Q ss_pred             CCcceeeeeeccCc--cc-------------------eEEEEEEEeCCCchh-hhcchhhhccCCcEEEEEEECCChhHH
Q psy16649          1 SGENLCTLQIFRGC--FQ-------------------HNFHINYRDTAGQER-FRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus         1 ~GKss~~~~~~~~~--~~-------------------~~~~l~i~Dt~g~~~-~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      +|||||+.++....  |.                   ..+.+.+|||+|++. ++.+++.|++.++++++|||+++++||
T Consensus        17 vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~   96 (192)
T 2cjw_A           17 VGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASF   96 (192)
T ss_dssp             SSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHH
T ss_pred             CCHHHHHHHHhcCcCCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHH
Confidence            69999999986321  11                   567889999999887 667889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         59 DNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        59 ~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.+..|...+.+.. .+++|+++|||
T Consensus        97 ~~~~~~~~~l~~~~~~~~~piilV~N  122 (192)
T 2cjw_A           97 EKASELRIQLRRARQTEDIPIILVGN  122 (192)
T ss_dssp             HHHHHHHHHHHHHTTTSCCCEEEEEE
T ss_pred             HHHHHHHHHHHHhhCCCCCeEEEEEe
Confidence            99999998887753 35799999997

>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=99.83  E-value=9.8e-21  Score=115.87  Aligned_cols=82  Identities=17%  Similarity=0.423  Sum_probs=73.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||+++++||+++
T Consensus       166 ~GKssli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  245 (332)
T 2wkq_A          166 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHV  245 (332)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CChHHHHHHHHhCCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHH
Confidence            6999999888766653                   567888999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|++.+.... +++|+++|||
T Consensus       246 ~~~~~~~~~~~~-~~~p~ilv~n  267 (332)
T 2wkq_A          246 RAKWYPEVRHHC-PNTPIILVGT  267 (332)
T ss_dssp             HHTHHHHHHHHC-TTSCEEEEEE
T ss_pred             HHHHHHHHHhhC-CCCcEEEEEE
Confidence            7 7999998876 4899999997

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.73  E-value=3e-22  Score=115.94  Aligned_cols=82  Identities=20%  Similarity=0.461  Sum_probs=73.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +||||++.++..+.+.                   ..+.+++|||+|++++..++..+++++|++++|||++++++|+++
T Consensus        41 ~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~  120 (204)
T 3th5_A           41 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENV  120 (204)
Confidence            6999999998877664                   457788999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHHHhcCCCceEEEEeC
Q psy16649         62 K-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~-~w~~~~~~~~~~~~piilvgN   83 (83)
                      . .|+..+.... +++|+++|||
T Consensus       121 ~~~~~~~l~~~~-~~~piilv~N  142 (204)
T 3th5_A          121 RAKWYPEVRHHC-PNTPIILVGT  142 (204)
Confidence            7 8998888765 4899999997

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.83  E-value=8.9e-21  Score=116.36  Aligned_cols=83  Identities=19%  Similarity=0.368  Sum_probs=69.3

Q ss_pred             CCcceeeeeeccCc--cc------------------eEEEEEEEeCCCchhh-----hcchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGC--FQ------------------HNFHINYRDTAGQERF-----RTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~--~~------------------~~~~l~i~Dt~g~~~~-----~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||+.++..+.  +.                  ..+.+++|||+|++++     ..++..++++++++|+|||++++
T Consensus        14 vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~   93 (307)
T 3r7w_A           14 SGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVEST   93 (307)
T ss_dssp             SSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEETTTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCS
T ss_pred             CCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeCCceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCCh
Confidence            79999999987662  21                  2367999999999999     78999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhc--CCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENA--SANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~--~~~~piilvgN   83 (83)
                      +||++++.|.+.+.+..  .+++|+++|||
T Consensus        94 ~s~~~l~~~~~~l~~l~~~~~~~piilv~N  123 (307)
T 3r7w_A           94 EVLKDIEIFAKALKQLRKYSPDAKIFVLLH  123 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTCEEEEEEE
T ss_pred             hhHHHHHHHHHHHHHHHHhCCCCeEEEEEe
Confidence            99999988765554422  36899999997

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.1e-20  Score=117.02  Aligned_cols=83  Identities=14%  Similarity=0.335  Sum_probs=68.6

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..++++||||+|+++|..++..+++.+|++|+|||++++++|+.+..|+
T Consensus       176 vGKSsLl~~l~~~~~~~~~pT~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~  255 (329)
T 3o47_A          176 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREEL  255 (329)
T ss_dssp             SSHHHHHHHTCSSCCEEEEEETTEEEEEEEETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHH
T ss_pred             ccHHHHHHHHhCCCCCCcccccceEEEEEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHH
Confidence            6999999999888765               3468999999999999999999999999999999999999999999887


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... .+++|++||||
T Consensus       256 ~~~~~~~~~~~~piilV~N  274 (329)
T 3o47_A          256 MRMLAEDELRDAVLLVFAN  274 (329)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHhhhccCCCeEEEEEE
Confidence            7765533 36899999997

>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=99.80  E-value=8.8e-20  Score=106.11  Aligned_cols=83  Identities=14%  Similarity=0.296  Sum_probs=67.7

Q ss_pred             CCcceeeeeeccCccc---------------e---EEEEEEEeCCCchhhhc-chhhhccCCcEEEEEEECCChh-HHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------H---NFHINYRDTAGQERFRT-ITTAYYRGAMGIMLVYDITNEK-SFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~---~~~l~i~Dt~g~~~~~~-~~~~~~~~~~~~ilv~d~~~~~-s~~~   60 (83)
                      +|||||+.++..+.|.               .   .+++++|||+|+++|+. +++.|+++++++++|||+++.+ ++..
T Consensus        18 ~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~   97 (214)
T 2fh5_B           18 SGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKD   97 (214)
T ss_dssp             SSHHHHHHHHHHSCCCCBCCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHH
T ss_pred             CCHHHHHHHHhCCCcccccCCcceeeEEEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHH
Confidence            6999999999877765               1   67899999999999998 8999999999999999999964 5666


Q ss_pred             HHH-HHHHHHHh--cCCCceEEEEeC
Q psy16649         61 IKN-WIRNIEEN--ASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~-w~~~~~~~--~~~~~piilvgN   83 (83)
                      +.. |.+.+...  ...++|++||||
T Consensus        98 ~~~~~~~~~~~~~~~~~~~piilv~n  123 (214)
T 2fh5_B           98 VAEFLYQVLIDSMALKNSPSLLIACN  123 (214)
T ss_dssp             HHHHHHHHHHHHHTSTTCCEEEEEEE
T ss_pred             HHHHHHHHHhhhhhcccCCCEEEEEE
Confidence            654 55555442  246799999997

>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=99.80  E-value=2.5e-19  Score=103.50  Aligned_cols=83  Identities=40%  Similarity=0.776  Sum_probs=73.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++....+.                    ..+.+++||++|+++++.++..+++.++++++|||+++..+|++
T Consensus        16 ~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   95 (199)
T 2f9l_A           16 VGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYEN   95 (199)
T ss_dssp             SSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHH
Confidence            7999999998776541                    45788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++........|+++++|
T Consensus        96 ~~~~~~~~~~~~~~~~~i~~v~n  118 (199)
T 2f9l_A           96 VERWLKELRDHADSNIVIMLVGN  118 (199)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCeEEEEEE
Confidence            99999988776556889999986

>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=99.78  E-value=4.8e-20  Score=110.55  Aligned_cols=58  Identities=16%  Similarity=0.286  Sum_probs=51.0

Q ss_pred             CCCchhhhcchhhhcc---------------------CCcEEEEEEECCCh--hHHHHHHHHHHHHHHh-cCCCceEEEE
Q psy16649         26 TAGQERFRTITTAYYR---------------------GAMGIMLVYDITNE--KSFDNIKNWIRNIEEN-ASANVEKMLL   81 (83)
Q Consensus        26 t~g~~~~~~~~~~~~~---------------------~~~~~ilv~d~~~~--~s~~~~~~w~~~~~~~-~~~~~piilv   81 (83)
                      ++|+++|..+++.|++                     ++|++|+|||++++  +||+.+..|+.++.+. ..+++|++||
T Consensus       125 ~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV  204 (255)
T 3c5h_A          125 RAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVV  204 (255)
T ss_dssp             HHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEE
Confidence            8899999999999998                     89999999999999  9999999999999775 3468999999


Q ss_pred             eC
Q psy16649         82 GN   83 (83)
Q Consensus        82 gN   83 (83)
                      ||
T Consensus       205 ~N  206 (255)
T 3c5h_A          205 LT  206 (255)
T ss_dssp             EE
T ss_pred             EE
Confidence            97

>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=99.77  E-value=6.1e-19  Score=101.52  Aligned_cols=83  Identities=39%  Similarity=0.762  Sum_probs=73.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++....+.                    ..+.+++||++|++++..++..+++.++++++|||+++..+|++
T Consensus        40 ~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~  119 (191)
T 1oix_A           40 VGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYEN  119 (191)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHH
Confidence            7999999998766552                    45678889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+....+.|+++++|
T Consensus       120 ~~~~~~~~~~~~~~~~~i~~v~n  142 (191)
T 1oix_A          120 VERWLKELRDHADSNIVIMLVGN  142 (191)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEE
Confidence            99999988776556889999986

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.77  E-value=1.6e-18  Score=109.83  Aligned_cols=66  Identities=17%  Similarity=0.234  Sum_probs=61.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----------EKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----------~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .++++||||+||++++.+|..||++++++|+|||+++          .++|+++..|++++.+.. .+++|++||||
T Consensus       216 ~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgN  292 (402)
T 1azs_C          216 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLN  292 (402)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEE
T ss_pred             CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEE
Confidence            4899999999999999999999999999999999999          999999999999987753 47899999998

>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=99.76  E-value=1.1e-19  Score=105.92  Aligned_cols=83  Identities=14%  Similarity=0.270  Sum_probs=72.4

Q ss_pred             CCcceeeeeeccCccce--------------EEEEEEEeCCCchhhhcchhhhccC----CcEEEEEEECC-ChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQH--------------NFHINYRDTAGQERFRTITTAYYRG----AMGIMLVYDIT-NEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~--------------~~~l~i~Dt~g~~~~~~~~~~~~~~----~~~~ilv~d~~-~~~s~~~~   61 (83)
                      +||||++.++..+.+..              .+.+.+|||+|+++++..+..|++.    ++++++|||++ ++++|..+
T Consensus        23 ~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~  102 (218)
T 1nrj_B           23 SGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTT  102 (218)
T ss_dssp             SSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHH
T ss_pred             CCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHH
Confidence            69999999998876542              2478999999999999999999988    89999999999 99999999


Q ss_pred             HHHHHHHHHh----cCCCceEEEEeC
Q psy16649         62 KNWIRNIEEN----ASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~----~~~~~piilvgN   83 (83)
                      ..|+.++...    .++++|+++|+|
T Consensus       103 ~~~~~~~~~~~~~~~~~~~p~ilv~n  128 (218)
T 1nrj_B          103 AEFLVDILSITESSCENGIDILIACN  128 (218)
T ss_dssp             HHHHHHHHHHHHHHSTTCCCEEEEEE
T ss_pred             HHHHHHHHhcccccccCCCCEEEEEE
Confidence            9998888664    346899999997

>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=99.76  E-value=1.1e-18  Score=109.10  Aligned_cols=67  Identities=15%  Similarity=0.157  Sum_probs=59.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECC----------ChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDIT----------NEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~----------~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.++++||||+||++|+.+|..||++++++|+|||++          +.++|+++..|++++.+.. .+++|++||||
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgN  258 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLN  258 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEE
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEE
Confidence            4689999999999999999999999999999999999          8899999999999887643 36899999998

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.75  E-value=1.7e-19  Score=103.33  Aligned_cols=83  Identities=14%  Similarity=0.270  Sum_probs=70.9

Q ss_pred             CCcceeeeeeccCccce--------------EEEEEEEeCCCchhhhcchhhhccC----CcEEEEEEECC-ChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQH--------------NFHINYRDTAGQERFRTITTAYYRG----AMGIMLVYDIT-NEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~--------------~~~l~i~Dt~g~~~~~~~~~~~~~~----~~~~ilv~d~~-~~~s~~~~   61 (83)
                      +||||++.++..+.+..              .+.+.+|||+|++++...+..+++.    ++++++|||++ ++++|..+
T Consensus        59 ~GKSsll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~  138 (193)
T 2ged_A           59 SGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTT  138 (193)
T ss_dssp             SSHHHHHHHHHHSSCC------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCcccccCCCceeeeecCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHH
Confidence            79999999998876542              3468899999999999888888887    89999999999 99999999


Q ss_pred             HHHHHHHHHh----cCCCceEEEEeC
Q psy16649         62 KNWIRNIEEN----ASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~----~~~~~piilvgN   83 (83)
                      ..|+.++...    ..+++|+++|||
T Consensus       139 ~~~~~~~~~~~~~~~~~~~p~ilv~n  164 (193)
T 2ged_A          139 AEFLVDILSITESSCENGIDILIACN  164 (193)
T ss_dssp             HHHHHHHHHHHHHHSTTCCCEEEEEE
T ss_pred             HHHHHHHHhhhhhccccCCCEEEEEE
Confidence            9998887654    336899999997

>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=99.73  E-value=7.5e-18  Score=104.82  Aligned_cols=67  Identities=15%  Similarity=0.233  Sum_probs=60.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECC----------ChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDIT----------NEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~----------~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..++++||||+||++++.+|..||++++++|+|||++          +.++|++...|++.+.... ..++|++|+||
T Consensus       159 ~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~N  236 (340)
T 4fid_A          159 KDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLN  236 (340)
T ss_dssp             SSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEE
T ss_pred             eeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEE
Confidence            4578999999999999999999999999999999999          7899999999988887643 36899999998

>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=99.71  E-value=2e-17  Score=103.40  Aligned_cols=66  Identities=17%  Similarity=0.273  Sum_probs=59.8

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----------EKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----------~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+++++|||+||++++.+|..||++++++|+|||+++          .++|++...|++.+.+.. ..++|++|+||
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~N  268 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLN  268 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEE
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEE
Confidence            5889999999999999999999999999999999999          578999999999887642 26899999998

>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=99.69  E-value=5.9e-18  Score=96.02  Aligned_cols=82  Identities=15%  Similarity=0.097  Sum_probs=63.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc------c--hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT------I--TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~------~--~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                   ....+++|||+|++++..      +  ...+++++|++++|||++
T Consensus        15 ~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~   94 (172)
T 2gj8_A           15 AGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGT   94 (172)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECC
Confidence            6999999998765431                   124689999999865321      1  124689999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|++ ...|++++.+....++|+++|||
T Consensus        95 ~~~s~~-~~~~~~~~~~~~~~~~p~ilv~N  123 (172)
T 2gj8_A           95 TTDAVD-PAEIWPEFIARLPAKLPITVVRN  123 (172)
T ss_dssp             TCCCCS-HHHHCHHHHHHSCTTCCEEEEEE
T ss_pred             CCCCHH-HHHHHHHHHHhcccCCCEEEEEE
Confidence            999987 45788888776656899999997

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.69  E-value=4e-18  Score=96.24  Aligned_cols=76  Identities=21%  Similarity=0.243  Sum_probs=60.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~   59 (83)
                      +||||++.++..+.+.                  ....+.+|||+|++++..++..+++.+|++++|||+++   +++++
T Consensus        19 ~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~   98 (178)
T 2lkc_A           19 HGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVE   98 (178)
T ss_dssp             TTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHH
T ss_pred             CCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHH
Confidence            7999999998765553                  23578899999999999999999999999999999998   44444


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.       .....++|+++|||
T Consensus        99 ~l~-------~~~~~~~p~ilv~n  115 (178)
T 2lkc_A           99 AIN-------HAKAANVPIIVAIN  115 (178)
T ss_dssp             HHH-------HHGGGSCCEEEEEE
T ss_pred             HHH-------HHHhCCCCEEEEEE
Confidence            332       22235789999987

>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=99.69  E-value=7.9e-17  Score=99.83  Aligned_cols=67  Identities=21%  Similarity=0.269  Sum_probs=58.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECC----------ChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDIT----------NEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~----------~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.+++++|||+||++++.+|..||++++++|+|||++          +.++|++...|++.+.... ..++|++|+||
T Consensus       165 ~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~N  242 (327)
T 3ohm_A          165 QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLN  242 (327)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEE
T ss_pred             eceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEE
Confidence            4589999999999999999999999999999999665          7788888888888886543 36899999998

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.67  E-value=7.8e-17  Score=90.63  Aligned_cols=77  Identities=13%  Similarity=0.032  Sum_probs=60.2

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh------cchhhhcc--CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR------TITTAYYR--GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~------~~~~~~~~--~~~~~ilv~d~~~   54 (83)
                      +|||||+.++..+.+.                  ....+++|||+|++++.      .+...|++  +++++++|+|.++
T Consensus        14 vGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~   93 (165)
T 2wji_A           14 VGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA   93 (165)
T ss_dssp             SSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETTEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTC
T ss_pred             CCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECCcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCc
Confidence            6999999998765432                  23679999999999875      45577776  8999999999998


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++   ...|+.++.+   .+.|+++|||
T Consensus        94 ~~~---~~~~~~~~~~---~~~p~ilv~n  116 (165)
T 2wji_A           94 LER---NLYLTLQLME---MGANLLLALN  116 (165)
T ss_dssp             HHH---HHHHHHHHHH---TTCCEEEEEE
T ss_pred             hhH---hHHHHHHHHh---cCCCEEEEEE
Confidence            654   4568777765   3689999997

>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=99.67  E-value=1.3e-16  Score=99.99  Aligned_cols=67  Identities=19%  Similarity=0.235  Sum_probs=53.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----------EKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----------~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..+++++|||+||++++..|..||++++++|+|||+++          .++|++...|++.+.+.. ..++|++|+||
T Consensus       199 ~~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~N  276 (362)
T 1zcb_A          199 KNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLN  276 (362)
T ss_dssp             TTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEE
T ss_pred             CCeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEE
Confidence            35889999999999999999999999999999999999          789999999998887642 36899999998

>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=99.65  E-value=1e-16  Score=94.26  Aligned_cols=81  Identities=21%  Similarity=0.144  Sum_probs=61.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCc------hh----hhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQ------ER----FRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~------~~----~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++..+.+.                  ..+.+.+|||+|+      ++    +..+ ..++..++++++|||+
T Consensus        40 vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~-~~~~~~~d~~i~v~d~  118 (228)
T 2qu8_A           40 VGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKLNKYQIIDTPGLLDRAFENRNTIEMTTI-TALAHINGVILFIIDI  118 (228)
T ss_dssp             SSHHHHHHHHTTTCEEEECC-----CEEEEEEEETTEEEEEEECTTTTTSCGGGCCHHHHHHH-HHHHTSSEEEEEEEET
T ss_pred             CCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCCCeEEEEECCCCcCcccchhhhHHHHHH-HHhhccccEEEEEEec
Confidence            6999999999887663                  1267999999999      44    3333 3467889999999999


Q ss_pred             CChhHHHH--HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDN--IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~--~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++.+|+.  ...|+..+.... +++|+++|||
T Consensus       119 ~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~n  150 (228)
T 2qu8_A          119 SEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFN  150 (228)
T ss_dssp             TCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEE
T ss_pred             ccccCcchHHHHHHHHHHHHhh-cCCcEEEEEe
Confidence            99998863  235666665443 4899999997

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.63  E-value=7.3e-17  Score=104.92  Aligned_cols=79  Identities=20%  Similarity=0.352  Sum_probs=66.8

Q ss_pred             CCcceeeeeeccCccc----------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++..+.|.                            ..+.+.+|||+|++.|..++..++++++++|+|||+
T Consensus        52 vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~  131 (535)
T 3dpu_A           52 AGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS  131 (535)
T ss_dssp             SSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECG
T ss_pred             CCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeC
Confidence            6999999999887642                            147899999999999999999999999999999998


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.   +.+..|++++.+.. ++.|+++|||
T Consensus       132 s~~---~~~~~~~~~l~~~~-~~~pvilV~N  158 (535)
T 3dpu_A          132 RTD---SNKHYWLRHIEKYG-GKSPVIVVMN  158 (535)
T ss_dssp             GGG---GGHHHHHHHHHHHS-SSCCEEEEEC
T ss_pred             CCc---hhHHHHHHHHHHhC-CCCCEEEEEE
Confidence            765   56788999998876 5899999998

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.63  E-value=2.4e-17  Score=93.83  Aligned_cols=83  Identities=16%  Similarity=0.234  Sum_probs=67.9

Q ss_pred             CCcceeeeeeccCccc-----------eEE---EEEEEeCCC-----------chhhhcchhhhccC-CcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-----------HNF---HINYRDTAG-----------QERFRTITTAYYRG-AMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------~~~---~l~i~Dt~g-----------~~~~~~~~~~~~~~-~~~~ilv~d~~~   54 (83)
                      +||||++.++..+.+.           ..+   .+.+|||+|           ++++..++..|+++ +++++++|++.+
T Consensus        12 ~GKSsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d   91 (190)
T 2cxx_A           12 VGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVD   91 (190)
T ss_dssp             SSHHHHHHHHHSCCCSSSSSTTCTTSCEEEEETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEE
T ss_pred             CCHHHHHHHHhCcCCccCCCCCccceeEEEecCCEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEc
Confidence            6999999999887765           122   578999999           88999999999998 999999999999


Q ss_pred             hhHHHHH-HHHHHH--------HHH-hcCCCceEEEEeC
Q psy16649         55 EKSFDNI-KNWIRN--------IEE-NASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~-~~w~~~--------~~~-~~~~~~piilvgN   83 (83)
                      .++|+++ +.|.+.        +.. ....++|+++|||
T Consensus        92 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~n  130 (190)
T 2cxx_A           92 GKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVN  130 (190)
T ss_dssp             TTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEE
T ss_pred             chhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEee
Confidence            9999988 678753        222 2236899999997

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.61  E-value=2.1e-16  Score=87.82  Aligned_cols=79  Identities=10%  Similarity=0.029  Sum_probs=57.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh-------hhcchhhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER-------FRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~-------~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      +||||++.++..+.+.                   ....+.+|||+|+++       +...+..+++.++++++|+|.++
T Consensus        12 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~   91 (161)
T 2dyk_A           12 VGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRA   91 (161)
T ss_dssp             SSHHHHHHHHHHCCC-----------CCEEEEEEETTEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSS
T ss_pred             CCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            6999999999876532                   224788999999987       45667788999999999999998


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+...  .|+.+....  .++|+++|||
T Consensus        92 ~~~~~~--~~~~~~~~~--~~~p~ilv~n  116 (161)
T 2dyk_A           92 ELTQAD--YEVAEYLRR--KGKPVILVAT  116 (161)
T ss_dssp             CCCHHH--HHHHHHHHH--HTCCEEEEEE
T ss_pred             cccHhH--HHHHHHHHh--cCCCEEEEEE
Confidence            644332  232222222  4688999987

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.59  E-value=4.8e-16  Score=88.48  Aligned_cols=77  Identities=13%  Similarity=0.062  Sum_probs=60.2

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh------cchhhhcc--CCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR------TITTAYYR--GAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~------~~~~~~~~--~~~~~ilv~d~~~   54 (83)
                      +|||||+.++..+.+.                  ....+++|||+|++++.      .++..|++  .++++++|+|.++
T Consensus        18 vGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~   97 (188)
T 2wjg_A           18 VGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA   97 (188)
T ss_dssp             SSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG
T ss_pred             CCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh
Confidence            6999999998875331                  23578999999999875      45677775  4999999999875


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                         +++...|+.++.+   .++|+++|+|
T Consensus        98 ---~~~~~~~~~~~~~---~~~piilv~n  120 (188)
T 2wjg_A           98 ---LERNLYLTLQLME---MGANLLLALN  120 (188)
T ss_dssp             ---HHHHHHHHHHHHT---TTCCEEEEEE
T ss_pred             ---HHHHHHHHHHHHh---cCCCEEEEEE
Confidence               5667778877764   4789999987

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.59  E-value=3.9e-16  Score=89.29  Aligned_cols=79  Identities=10%  Similarity=0.217  Sum_probs=60.5

Q ss_pred             CCcceeeeeeccCccc-------------eE----EEEEEEeCCC----------chhhhcchhhhccCC---cEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------HN----FHINYRDTAG----------QERFRTITTAYYRGA---MGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~~----~~l~i~Dt~g----------~~~~~~~~~~~~~~~---~~~ilv~   50 (83)
                      +||||++.++..+.|.             ..    .++.+|||+|          ++++..++..+++.+   +++++|+
T Consensus        34 ~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~  113 (195)
T 1svi_A           34 VGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIV  113 (195)
T ss_dssp             SSHHHHHHHHHTC-------------CCEEEEEETTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEE
T ss_pred             CCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECCcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEE
Confidence            6999999999877643             11    1478999999          899999999999888   9999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |++++.++.... +.+.+.+   .++|+++|+|
T Consensus       114 d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~n  142 (195)
T 1svi_A          114 DLRHAPSNDDVQ-MYEFLKY---YGIPVIVIAT  142 (195)
T ss_dssp             ETTSCCCHHHHH-HHHHHHH---TTCCEEEEEE
T ss_pred             ECCCCCCHHHHH-HHHHHHH---cCCCEEEEEE
Confidence            999988887653 1222222   5789999987

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.56  E-value=1.9e-15  Score=92.83  Aligned_cols=80  Identities=16%  Similarity=0.113  Sum_probs=67.5

Q ss_pred             CCcceeeeeeccCccc-------------------e-EEEEEEEeCCCchh----------hhcchhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------H-NFHINYRDTAGQER----------FRTITTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~-~~~l~i~Dt~g~~~----------~~~~~~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++....+.                   . ...+.+|||+|+.+          +......+++.+|++++|+
T Consensus        21 vGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~Vv  100 (308)
T 3iev_A           21 VGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMI  100 (308)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEE
Confidence            6999999998876653                   2 67899999999844          3467788999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+++....|++.+..   .+.|+++|+|
T Consensus       101 D~~~~~~~~~~~~~~~~l~~---~~~pvilV~N  130 (308)
T 3iev_A          101 DATEGWRPRDEEIYQNFIKP---LNKPVIVVIN  130 (308)
T ss_dssp             ETTTBSCHHHHHHHHHHTGG---GCCCEEEEEE
T ss_pred             eCCCCCCchhHHHHHHHHHh---cCCCEEEEEE
Confidence            99999999998888888775   3689999987

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.56  E-value=3.9e-15  Score=91.28  Aligned_cols=80  Identities=15%  Similarity=0.221  Sum_probs=61.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--------hhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--------FRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--------~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                   ....+.+|||+|+.+        +......+++.+|++++|+|.+
T Consensus        18 vGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~   97 (301)
T 1wf3_A           18 VGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLR   97 (301)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECC
Confidence            6999999998876552                   246899999999876        5566778999999999999999


Q ss_pred             ChhHHHHHHHHH-HHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWI-RNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~-~~~~~~~~~~~piilvgN   83 (83)
                      ++.+..  ..|+ +.+++.. ++.|+++|+|
T Consensus        98 ~~~~~~--~~~i~~~l~~~~-~~~p~ilV~N  125 (301)
T 1wf3_A           98 HPPTPE--DELVARALKPLV-GKVPILLVGN  125 (301)
T ss_dssp             SCCCHH--HHHHHHHHGGGT-TTSCEEEEEE
T ss_pred             CCCChH--HHHHHHHHHhhc-CCCCEEEEEE
Confidence            875544  3454 5555443 5799999987

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.53  E-value=2.7e-15  Score=90.15  Aligned_cols=82  Identities=15%  Similarity=0.141  Sum_probs=63.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhcc---------CCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYR---------GAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~---------~~~~~ilv~d~   52 (83)
                      +||||++.++..+.+.                   ....+.+|||+|++++....+.+++         +++++++|+++
T Consensus        47 ~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~  126 (262)
T 3def_A           47 VGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRL  126 (262)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEES
T ss_pred             CCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcC
Confidence            6999999998876642                   3358899999999988776666665         88999999999


Q ss_pred             CChhHHHHH-HHHHHHHHHhcCCC--ceEEEEeC
Q psy16649         53 TNEKSFDNI-KNWIRNIEENASAN--VEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~-~~w~~~~~~~~~~~--~piilvgN   83 (83)
                      +... +... ..|++.+.+..+.+  .|+++|+|
T Consensus       127 d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~n  159 (262)
T 3def_A          127 DVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLT  159 (262)
T ss_dssp             SCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEE
T ss_pred             CCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEe
Confidence            8766 5544 47888888766544  38899886

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.52  E-value=4.2e-15  Score=89.31  Aligned_cols=77  Identities=12%  Similarity=0.005  Sum_probs=59.1

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc----------chhhhc--cCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT----------ITTAYY--RGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~----------~~~~~~--~~~~~~ilv~   50 (83)
                      |||||++.++....+.                  ....+.+|||+|++.+..          +...|+  +++|++++|+
T Consensus        12 ~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~Vv   91 (256)
T 3iby_A           12 CGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVI   91 (256)
T ss_dssp             SSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEE
T ss_pred             CCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEe
Confidence            7999999998776442                  234788999999987754          567778  8999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++.+++..+..|+.+      .+.|+++|+|
T Consensus        92 Das~~~~~~~l~~~l~~------~~~pvilv~N  118 (256)
T 3iby_A           92 DACHLERHLYLTSQLFE------LGKPVVVALN  118 (256)
T ss_dssp             EGGGHHHHHHHHHHHTT------SCSCEEEEEE
T ss_pred             eCCCchhHHHHHHHHHH------cCCCEEEEEE
Confidence            99998776655444322      3689999987

>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=99.51  E-value=2.2e-14  Score=87.82  Aligned_cols=74  Identities=18%  Similarity=0.132  Sum_probs=62.5

Q ss_pred             eeeeeeccCccc-------------eE----EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh-HHHHHHHHHH
Q psy16649          5 LCTLQIFRGCFQ-------------HN----FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK-SFDNIKNWIR   66 (83)
Q Consensus         5 s~~~~~~~~~~~-------------~~----~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~w~~   66 (83)
                      +++.++..+.|.             ..    -+++|||+  ||+|+.+++.|++++|++|+|||+++++ +|+.++.|+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~~~~~~~~~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~  109 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVEYTPDETGSGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLV  109 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEEEECCCSSSEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEEEEEcCCCeEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHH
Confidence            567777766663             01    15789999  9999999999999999999999999998 7999999999


Q ss_pred             HHHHhcCCCceEEEEeC
Q psy16649         67 NIEENASANVEKMLLGN   83 (83)
Q Consensus        67 ~~~~~~~~~~piilvgN   83 (83)
                      +++.   .++|++||||
T Consensus       110 ~~~~---~~~piilv~N  123 (301)
T 1u0l_A          110 LAEK---NELETVMVIN  123 (301)
T ss_dssp             HHHH---TTCEEEEEEC
T ss_pred             HHHH---CCCCEEEEEe
Confidence            8764   4799999998

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.51  E-value=5.6e-15  Score=84.18  Aligned_cols=77  Identities=13%  Similarity=0.250  Sum_probs=59.4

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCC----------chhhhcchhhhccCC---cEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAG----------QERFRTITTAYYRGA---MGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g----------~~~~~~~~~~~~~~~---~~~ilv~d   51 (83)
                      +||||++.++..+.+.                ....+.+|||+|          ++.+..+++.|++.+   +++++|+|
T Consensus        34 ~GKSsli~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d  113 (195)
T 3pqc_A           34 VGKSSLLNALFNRKIAFVSKTPGKTRSINFYLVNSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVD  113 (195)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSCCCCCCEEEEEETTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEE
T ss_pred             CCHHHHHHHHHcCccccccCCCCCccCeEEEEECCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEec
Confidence            7999999998877533                123578999999          888999999999877   99999999


Q ss_pred             CCChhH--HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         52 ITNEKS--FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        52 ~~~~~s--~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++..+  +..+..|+...      ++|+++|+|
T Consensus       114 ~~~~~~~~~~~~~~~~~~~------~~p~i~v~n  141 (195)
T 3pqc_A          114 GRIPPQDSDLMMVEWMKSL------NIPFTIVLT  141 (195)
T ss_dssp             TTSCCCHHHHHHHHHHHHT------TCCEEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHc------CCCEEEEEE
Confidence            987644  34444554432      689999987

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.50  E-value=1.5e-14  Score=86.96  Aligned_cols=77  Identities=19%  Similarity=0.130  Sum_probs=59.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc------chhhhc--cCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT------ITTAYY--RGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~------~~~~~~--~~~~~~ilv~d~~~   54 (83)
                      |||||++.++....+.                  ....+.+|||+|++++..      +...|+  .++|++++|+|.++
T Consensus        16 vGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~   95 (258)
T 3a1s_A           16 VGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVN   95 (258)
T ss_dssp             SSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTS
T ss_pred             CCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCc
Confidence            7999999998875543                  246899999999988765      336666  58999999999999


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .++..   .|..++.+   .++|+++|+|
T Consensus        96 ~~~~~---~~~~~l~~---~~~pvilv~N  118 (258)
T 3a1s_A           96 PEQSL---YLLLEILE---MEKKVILAMT  118 (258)
T ss_dssp             CHHHH---HHHHHHHT---TTCCEEEEEE
T ss_pred             hhhHH---HHHHHHHh---cCCCEEEEEE
Confidence            76543   46666554   3689999987

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.47  E-value=1.7e-14  Score=93.13  Aligned_cols=81  Identities=14%  Similarity=0.082  Sum_probs=50.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcch--------hhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTIT--------TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~--------~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++......                   ..+.+.+|||+|++++....        ..+++.+|++++|+|.+
T Consensus       244 vGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s  323 (476)
T 3gee_A          244 AGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLG  323 (476)
T ss_dssp             SSHHHHHHHCC------------------CEEEEETTEEEEEEC--------------------CCCSSCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECC
Confidence            6999999998876421                   23578999999998776443        44789999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.++++++.+.+.+...  .+.|+++|+|
T Consensus       324 ~~~s~~~~~~~~~~l~~l--~~~piIvV~N  351 (476)
T 3gee_A          324 TERLDDELTEIRELKAAH--PAAKFLTVAN  351 (476)
T ss_dssp             TCSSGGGHHHHHHHHHHC--TTSEEEEEEE
T ss_pred             CCcchhhhHHHHHHHHhc--CCCCEEEEEE
Confidence            999887554444333332  2789999987

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.47  E-value=7.3e-15  Score=93.66  Aligned_cols=79  Identities=14%  Similarity=0.079  Sum_probs=63.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCc----------hhhhcchh-hhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQ----------ERFRTITT-AYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~----------~~~~~~~~-~~~~~~~~~ilv~   50 (83)
                      +|||||+.++..+.+.                   ....+++|||+|+          |+|..++. .+++.+|++++|+
T Consensus       186 vGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~  265 (436)
T 2hjg_A          186 VGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVL  265 (436)
T ss_dssp             SSHHHHHHHHHTSTTEEEC---------CCEEEEETTEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEE
Confidence            6999999999876542                   2246899999998          77777765 4889999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+++.. .|...+.+   .+.|+++|+|
T Consensus       266 D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~N  294 (436)
T 2hjg_A          266 DGEEGIIEQDK-RIAGYAHE---AGKAVVIVVN  294 (436)
T ss_dssp             ETTTCCCHHHH-HHHHHHHH---TTCEEEEEEE
T ss_pred             cCCcCCcHHHH-HHHHHHHH---cCCcEEEEEE
Confidence            99999998886 47766653   4689999987

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.47  E-value=3.3e-14  Score=86.04  Aligned_cols=77  Identities=18%  Similarity=0.118  Sum_probs=56.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc----------chhhhc--cCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT----------ITTAYY--RGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~----------~~~~~~--~~~~~~ilv~   50 (83)
                      |||||++.++....+.                  ....+.+|||+|++++..          +...|+  +++|++++|+
T Consensus        14 ~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~Vv   93 (274)
T 3i8s_A           14 SGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVV   93 (274)
T ss_dssp             SSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEE
T ss_pred             CCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEe
Confidence            7999999998876543                  234678999999988762          233444  7999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++.++...+..|   +.+.   ++|+++|+|
T Consensus        94 D~~~~~~~~~~~~~---l~~~---~~p~ivv~N  120 (274)
T 3i8s_A           94 DASNLERNLYLTLQ---LLEL---GIPCIVALN  120 (274)
T ss_dssp             EGGGHHHHHHHHHH---HHHH---TCCEEEEEE
T ss_pred             cCCChHHHHHHHHH---HHhc---CCCEEEEEE
Confidence            99987665544444   3332   689999987

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.45  E-value=2.7e-14  Score=86.50  Aligned_cols=77  Identities=19%  Similarity=0.133  Sum_probs=59.4

Q ss_pred             CCcceeeeeeccCccc-----------e------EEEEEEEeCCCchhhh------cchhhhcc--CCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ-----------H------NFHINYRDTAGQERFR------TITTAYYR--GAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------~------~~~l~i~Dt~g~~~~~------~~~~~~~~--~~~~~ilv~d~~~~   55 (83)
                      ||||||+.++....+.           .      ...+++|||+|++++.      .+...|+.  ++|++++|+|.++.
T Consensus        14 vGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~   93 (272)
T 3b1v_A           14 SGKTSLFNLITGHNQRVGNWPGVTVERKSGLVKKNKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNL   93 (272)
T ss_dssp             SSHHHHHHHHHCCCCCCCSSSCCCCSCEEEECTTCTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGH
T ss_pred             CCHHHHHHHHHCCCCcccCCCCCcEEEEEEEEecCCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCch
Confidence            7999999998765321           1      3479999999999876      46677776  69999999999987


Q ss_pred             hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++   ..|..++.+   .++|+++|+|
T Consensus        94 e~~---~~~~~~l~~---~~~p~ilv~N  115 (272)
T 3b1v_A           94 ERN---LYLTTQLIE---TGIPVTIALN  115 (272)
T ss_dssp             HHH---HHHHHHHHH---TCSCEEEEEE
T ss_pred             HhH---HHHHHHHHh---cCCCEEEEEE
Confidence            654   456666654   4789999987

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.44  E-value=1.4e-13  Score=87.08  Aligned_cols=63  Identities=13%  Similarity=0.088  Sum_probs=54.7

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|+++|......+++.+|++|+|+|.++..++.....|+..+....  ..|+++|+|
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviN  137 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQN  137 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEE
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEE
Confidence            789999999999999999999999999999999999888888888887776543  247888876

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.44  E-value=8.9e-14  Score=88.73  Aligned_cols=77  Identities=17%  Similarity=0.246  Sum_probs=55.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh---------hhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER---------FRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~---------~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++..+...                   ....+++|||+|++.         ++..+..++++||++++|+|.
T Consensus        12 vGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~   91 (439)
T 1mky_A           12 VGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDG   91 (439)
T ss_dssp             SSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEET
T ss_pred             CCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEEC
Confidence            6999999999866532                   124788999999764         455678899999999999999


Q ss_pred             CChhHHHH--HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDN--IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~--~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++..+...  +..|+.    .  .+.|++||+|
T Consensus        92 ~~~~~~~d~~i~~~l~----~--~~~p~ilv~N  118 (439)
T 1mky_A           92 KRGITKEDESLADFLR----K--STVDTILVAN  118 (439)
T ss_dssp             TTCCCHHHHHHHHHHH----H--HTCCEEEEEE
T ss_pred             CCCCCHHHHHHHHHHH----H--cCCCEEEEEe
Confidence            88655443  333332    2  2688999987

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.44  E-value=1.1e-14  Score=92.82  Aligned_cols=65  Identities=12%  Similarity=0.097  Sum_probs=52.2

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcC----CC-ceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS----AN-VEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~----~~-~piilvgN   83 (83)
                      ..++.+|||+|+++|...+..+++.+|++|+|+|.++ .+|+++..|..+.+++..    .. .|+++++|
T Consensus        83 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviN  152 (435)
T 1jny_A           83 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVN  152 (435)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEE
T ss_pred             CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEE
Confidence            4679999999999999999999999999999999999 899987766555544321    23 35778776

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.43  E-value=1e-13  Score=88.46  Aligned_cols=77  Identities=13%  Similarity=0.079  Sum_probs=57.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcc-------hhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTI-------TTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~-------~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                    ....+.+|||+|++++..+       ...+++++|++++|+|.+
T Consensus        45 vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~  124 (423)
T 3qq5_A           45 VGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSA  124 (423)
T ss_dssp             TTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSS
T ss_pred             CCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCC
Confidence            6999999999887652                    1127899999999987655       355889999999999994


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.   ...|++++.+.   ++|+++|+|
T Consensus       125 ~~~~---~~~~l~~l~~~---~~piIvV~N  148 (423)
T 3qq5_A          125 PTPY---EDDVVNLFKEM---EIPFVVVVN  148 (423)
T ss_dssp             CCHH---HHHHHHHHHHT---TCCEEEECC
T ss_pred             ChHH---HHHHHHHHHhc---CCCEEEEEe
Confidence            4333   35677776654   689999998

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.43  E-value=2.3e-14  Score=89.30  Aligned_cols=83  Identities=12%  Similarity=0.135  Sum_probs=66.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh----hhcchhhhccC---CcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER----FRTITTAYYRG---AMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~----~~~~~~~~~~~---~~~~ilv~d~~~   54 (83)
                      +|||||+.++....+.                   ....+.+|||+|+..    +..+...|++.   ++++|+|+|+++
T Consensus       169 vGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~  248 (342)
T 1lnz_A          169 VGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSG  248 (342)
T ss_dssp             SSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             CCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCc
Confidence            6999999998765421                   125789999999644    44566667665   999999999999


Q ss_pred             ---hhHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 ---EKSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ---~~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                         ++++++++.|.+++....+  .+.|+++|+|
T Consensus       249 ~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~N  282 (342)
T 1lnz_A          249 LEGRDPYDDYLTINQELSEYNLRLTERPQIIVAN  282 (342)
T ss_dssp             SSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEE
T ss_pred             ccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEE
Confidence               8999999999999988653  4789999987

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.41  E-value=9e-14  Score=91.68  Aligned_cols=57  Identities=19%  Similarity=0.190  Sum_probs=49.0

Q ss_pred             EEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+++|||+|+++|..++..+++.+|++|+|+|.++   +++++.+..+    +.   .++|+++++|
T Consensus        71 ~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l----~~---~~vPiIVViN  130 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM---YRTPFVVAAN  130 (594)
T ss_dssp             EEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHH----HH---TTCCEEEEEE
T ss_pred             CEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHH----HH---cCCeEEEEec
Confidence            48999999999999999999999999999999999   8888766532    21   4689999987

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.41  E-value=7.8e-14  Score=84.04  Aligned_cols=82  Identities=16%  Similarity=0.147  Sum_probs=60.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchh-------hh--ccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITT-------AY--YRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~-------~~--~~~~~~~ilv~d~   52 (83)
                      +||||++.++..+.+.                   ....+.+|||+|++++..+..       .|  .+.+|++++|+|+
T Consensus        50 ~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~  129 (270)
T 1h65_A           50 VGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRL  129 (270)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEES
T ss_pred             CCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeC
Confidence            6999999998876642                   234799999999977654332       12  3479999999999


Q ss_pred             CChhHHHHH-HHHHHHHHHhcCCC--ceEEEEeC
Q psy16649         53 TNEKSFDNI-KNWIRNIEENASAN--VEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~-~~w~~~~~~~~~~~--~piilvgN   83 (83)
                      +.. ++... ..|++.+.+..+.+  .|+++|+|
T Consensus       130 d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~n  162 (270)
T 1h65_A          130 DAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALT  162 (270)
T ss_dssp             SCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEE
T ss_pred             CCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEE
Confidence            764 45544 47888887765444  79999987

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.41  E-value=3.7e-14  Score=82.62  Aligned_cols=79  Identities=11%  Similarity=0.098  Sum_probs=58.6

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCC----------chhhhcchhhhccC---CcEE
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAG----------QERFRTITTAYYRG---AMGI   46 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g----------~~~~~~~~~~~~~~---~~~~   46 (83)
                      +|||||+.++..+.+.                     ....+.+|||+|          ++++..+...|++.   +|++
T Consensus        40 ~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v  119 (223)
T 4dhe_A           40 AGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGM  119 (223)
T ss_dssp             HHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEE
T ss_pred             CCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEE
Confidence            5999999999877621                     125688999999          67778888888887   7789


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         47 MLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        47 ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++|+|.++..+. .-..|++.+.+   .+.|+++|+|
T Consensus       120 i~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~n  152 (223)
T 4dhe_A          120 ILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLT  152 (223)
T ss_dssp             EEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEE
T ss_pred             EEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEe
Confidence            999999875442 22345555543   4688999987

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.40  E-value=2.5e-13  Score=89.63  Aligned_cols=62  Identities=21%  Similarity=0.323  Sum_probs=54.4

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|...+..+++.+|++|+|+|.++..+++....|.....    .++|+++|+|
T Consensus        70 ~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViN  131 (599)
T 3cb4_D           70 TYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLN  131 (599)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEE
T ss_pred             eEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeee
Confidence            4789999999999999999999999999999999999888888888876543    4689999987

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.40  E-value=1.4e-13  Score=81.48  Aligned_cols=81  Identities=14%  Similarity=0.078  Sum_probs=56.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCC-----------chhhhcchhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAG-----------QERFRTITTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g-----------~~~~~~~~~~~~~~~~~~ilv   49 (83)
                      +||||++.++....+.                    ....+.+|||+|           ++.+......++++++++|+|
T Consensus        40 ~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v  119 (239)
T 3lxx_A           40 AGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLV  119 (239)
T ss_dssp             SSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEE
T ss_pred             CCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEE
Confidence            6999999998775553                    235789999999           456666777788899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         50 YDITNEKSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        50 ~d~~~~~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      +|+++...  ....|++.+.+..+  ...|+++|+|
T Consensus       120 ~d~~~~~~--~~~~~l~~~~~~~~~~~~~~~iiv~n  153 (239)
T 3lxx_A          120 VPLGRYTE--EEHKATEKILKMFGERARSFMILIFT  153 (239)
T ss_dssp             EETTCCSS--HHHHHHHHHHHHHHHHHGGGEEEEEE
T ss_pred             eeCCCCCH--HHHHHHHHHHHHhhhhccceEEEEEe
Confidence            99976443  12234444433211  2458888876

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.39  E-value=5.6e-14  Score=89.61  Aligned_cols=79  Identities=16%  Similarity=0.127  Sum_probs=56.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch--------hhhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE--------RFRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~--------~~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                   ....+++|||+|++        ++...+..+++.||++++|+|.+
T Consensus        14 vGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~   93 (436)
T 2hjg_A           14 VGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGR   93 (436)
T ss_dssp             SSHHHHHHHHEEEECC-----------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            6999999998876542                   23468999999986        67788889999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..++..  .|+.++.+  ..+.|++||+|
T Consensus        94 ~~~~~~d--~~~~~~l~--~~~~pvilv~N  119 (436)
T 2hjg_A           94 EGVTAAD--EEVAKILY--RTKKPVVLAVN  119 (436)
T ss_dssp             TCSCHHH--HHHHHHHT--TCCSCEEEEEE
T ss_pred             CCCCHHH--HHHHHHHH--HcCCCEEEEEE
Confidence            8777654  33333222  25789999987

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.39  E-value=3e-13  Score=81.52  Aligned_cols=78  Identities=14%  Similarity=-0.031  Sum_probs=58.4

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhc------chhhhc--cCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRT------ITTAYY--RGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~------~~~~~~--~~~~~~ilv~d~~~   54 (83)
                      |||||++.++....+.                  ....+.+|||+|++.+..      +...|+  .++|++++|+|.++
T Consensus        14 ~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~   93 (271)
T 3k53_A           14 VGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTC   93 (271)
T ss_dssp             SSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGG
T ss_pred             CCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCc
Confidence            7999999998776543                  234689999999988766      667777  68999999999988


Q ss_pred             hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+   ....|..++.+.  ...|+++|+|
T Consensus        94 ~~---~~~~~~~~~~~~--~~~p~ilv~N  117 (271)
T 3k53_A           94 LM---RNLFLTLELFEM--EVKNIILVLN  117 (271)
T ss_dssp             HH---HHHHHHHHHHHT--TCCSEEEEEE
T ss_pred             ch---hhHHHHHHHHhc--CCCCEEEEEE
Confidence            64   333455455443  2389999987

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.38  E-value=6.9e-13  Score=82.72  Aligned_cols=82  Identities=11%  Similarity=0.079  Sum_probs=63.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh---------cchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR---------TITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~---------~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++....+.                  ....+.+|||+|.....         .....+...+|++++|+|++
T Consensus       178 vGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s  257 (357)
T 2e87_A          178 VGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPS  257 (357)
T ss_dssp             SSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTT
T ss_pred             CCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecCceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCC
Confidence            6999999998765532                  12458999999985432         11224556799999999999


Q ss_pred             Chh--HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEK--SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~--s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..  ++++...|++++....+ +.|+++|+|
T Consensus       258 ~~~~~~~~~~~~~~~~i~~~~~-~~piilV~N  288 (357)
T 2e87_A          258 EHCGFPLEEQIHLFEEVHGEFK-DLPFLVVIN  288 (357)
T ss_dssp             CTTSSCHHHHHHHHHHHHHHTT-TSCEEEEEC
T ss_pred             ccccCCHHHHHHHHHHHHHhcC-CCCEEEEEE
Confidence            988  78888899999987653 799999987

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.38  E-value=5.9e-13  Score=87.93  Aligned_cols=62  Identities=16%  Similarity=0.297  Sum_probs=54.4

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|......+++.+|++|+|+|.++..+++....|.....    .++|+++|+|
T Consensus        72 ~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviN  133 (600)
T 2ywe_A           72 TYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVIN  133 (600)
T ss_dssp             EEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEE
T ss_pred             eEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEe
Confidence            4789999999999999999999999999999999999988888888865543    4788999987

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.37  E-value=2.1e-13  Score=87.39  Aligned_cols=79  Identities=15%  Similarity=0.104  Sum_probs=60.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCC----------chhhhcchhh-hccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAG----------QERFRTITTA-YYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g----------~~~~~~~~~~-~~~~~~~~ilv~   50 (83)
                      +||||++.++......                   ....+++|||+|          +|+|..++.. +++.+|++++|+
T Consensus       206 vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llvi  285 (456)
T 4dcu_A          206 VGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVL  285 (456)
T ss_dssp             SSHHHHHHHHHTSTTEEECC------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEE
Confidence            6999999998854311                   234789999999          8999888775 889999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |.++..+ +....|...+.+   .+.|+++|+|
T Consensus       286 D~~~~~~-~~~~~~~~~~~~---~~~~~ilv~N  314 (456)
T 4dcu_A          286 DGEEGII-EQDKRIAGYAHE---AGKAVVIVVN  314 (456)
T ss_dssp             ETTTCCC-HHHHHHHHHHHH---TTCEEEEEEE
T ss_pred             eCCCCcC-HHHHHHHHHHHH---cCCCEEEEEE
Confidence            9987544 223455555544   4689999997

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.36  E-value=4.6e-13  Score=87.35  Aligned_cols=62  Identities=21%  Similarity=0.161  Sum_probs=52.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|...+..+++.+|++|+|+|.++..+.+....|. .+.   ..++|+++|+|
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~---~~~iPiivviN  142 (528)
T 3tr5_A           81 DYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCR---LRHTPIMTFIN  142 (528)
T ss_dssp             TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHH---TTTCCEEEEEE
T ss_pred             CEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHH---HcCCCEEEEEe
Confidence            478999999999999999999999999999999999987777776663 222   24689999987

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.36  E-value=5.8e-13  Score=90.62  Aligned_cols=62  Identities=21%  Similarity=0.275  Sum_probs=54.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|...+..+++.+|++|+|+|.++..+++....|.....    .++|+++++|
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviN  158 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVIN  158 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEE
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEE
Confidence            6789999999999999999999999999999999999988888777754332    4688999987

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.35  E-value=1.6e-12  Score=77.62  Aligned_cols=83  Identities=17%  Similarity=0.170  Sum_probs=51.6

Q ss_pred             CCcceeeeeeccCc-cc-------------------eEEEEEEEeCCCchhhhc-----------chhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGC-FQ-------------------HNFHINYRDTAGQERFRT-----------ITTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~-~~-------------------~~~~l~i~Dt~g~~~~~~-----------~~~~~~~~~~~~ilv   49 (83)
                      +||||++.++.... +.                   ....+.||||+|+..+..           ....+++.+|++++|
T Consensus        33 ~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V  112 (260)
T 2xtp_A           33 TGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLV  112 (260)
T ss_dssp             SCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEE
T ss_pred             CCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEE
Confidence            69999999987554 22                   125799999999876532           223478899999999


Q ss_pred             EECCChhHH-HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         50 YDITNEKSF-DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        50 ~d~~~~~s~-~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +|+++.... ..+..|+.++.......+++++++|
T Consensus       113 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~n  147 (260)
T 2xtp_A          113 TQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTH  147 (260)
T ss_dssp             EETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEEC
T ss_pred             EeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEc
Confidence            999863222 2223343333221112455666654

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.35  E-value=9.6e-14  Score=89.32  Aligned_cols=66  Identities=12%  Similarity=0.033  Sum_probs=40.6

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh---hHHHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE---KSFDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ..++.||||+|+++|......+++.+|++|+|+|.++.   +||+...+|.+.+......++| +++++|
T Consensus       120 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviN  189 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVIN  189 (467)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEE
T ss_pred             CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEE
Confidence            46789999999999999999999999999999999986   4565544555544433224576 888876

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.35  E-value=2.3e-12  Score=80.83  Aligned_cols=82  Identities=17%  Similarity=0.118  Sum_probs=61.5

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCc---------hhhhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQ---------ERFRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~---------~~~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++....+.                  ....+.+|||+|.         +.|+...+ .++.+|.+++|+|++
T Consensus       190 aGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~i~~lp~~lve~f~~tl~-~~~~aD~il~VvD~s  268 (364)
T 2qtf_A          190 SGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNRKIMLVDTVGFIRGIPPQIVDAFFVTLS-EAKYSDALILVIDST  268 (364)
T ss_dssp             SSHHHHHHHHHCC-----------CCSCEEEEEETTEEEEEEECCCBCSSCCGGGHHHHHHHHH-GGGGSSEEEEEEETT
T ss_pred             CCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCEEEEEEeCCCchhcCCHHHHHHHHHHHH-HHHhCCEEEEEEECC
Confidence            6999999998876551                  1256789999997         34444443 578999999999999


Q ss_pred             Chh--HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEK--SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~--s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.  +++.+..|.+.+......+.|+++|+|
T Consensus       269 ~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~N  300 (364)
T 2qtf_A          269 FSENLLIETLQSSFEILREIGVSGKPILVTLN  300 (364)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEE
T ss_pred             CCcchHHHHHHHHHHHHHHhCcCCCCEEEEEE
Confidence            987  677777787777665446789999987

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.34  E-value=2.6e-14  Score=93.30  Aligned_cols=79  Identities=15%  Similarity=0.149  Sum_probs=61.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++....+.                   ....+.+|||+|++.|..++..+++.+|++|+|+|.++....+..
T Consensus        15 vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~   94 (537)
T 3izy_P           15 HGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTV   94 (537)
T ss_dssp             TTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHH
T ss_pred             CCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHH
Confidence            6999999988654332                   234789999999999999999999999999999999986655444


Q ss_pred             HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.|    ......++|+++++|
T Consensus        95 e~l----~~~~~~~vPiIVViN  112 (537)
T 3izy_P           95 ESI----QHAKDAHVPIVLAIN  112 (537)
T ss_dssp             HHH----HHHHTTTCCEEECCB
T ss_pred             HHH----HHHHHcCCcEEEEEe
Confidence            433    222235689999987

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.33  E-value=6.4e-13  Score=84.97  Aligned_cols=66  Identities=18%  Similarity=0.106  Sum_probs=46.9

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH---HHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS---FDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s---~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ...+.||||+|+++|......+++.+|++|+|+|.++...   |+...++.+.+.......+| +++++|
T Consensus        94 ~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviN  163 (439)
T 3j2k_7           94 KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLIN  163 (439)
T ss_pred             CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEee
Confidence            4589999999999999999999999999999999998532   33222222222222223455 888877

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.32  E-value=1.5e-12  Score=82.98  Aligned_cols=63  Identities=10%  Similarity=-0.029  Sum_probs=47.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..++.+|||+|+++|...+..+++.+|++|+|+|.++... .....|+..+...  ...|+++|+|
T Consensus       103 ~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~--~~~~iIvviN  165 (434)
T 1zun_B          103 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL--GIKHIVVAIN  165 (434)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT--TCCEEEEEEE
T ss_pred             CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCeEEEEEE
Confidence            3579999999999999888899999999999999998643 2334444444332  2236888876

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.32  E-value=1.2e-12  Score=84.51  Aligned_cols=66  Identities=12%  Similarity=0.072  Sum_probs=44.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH--HHHHH---HHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI--KNWIR---NIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~--~~w~~---~~~~~~~~~~piilvgN   83 (83)
                      ....+.||||+|+++|......+++.+|++|+|+|.++.+++..+  ..+..   .+.... ...|+++|+|
T Consensus       109 ~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~~~~iIvviN  179 (483)
T 3p26_A          109 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-GIHNLIIAMN  179 (483)
T ss_dssp             SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-TCCCEEEEEE
T ss_pred             CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-CCCcEEEEEE
Confidence            346899999999999999999999999999999999998765442  11211   122222 2356888887

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.32  E-value=2.2e-13  Score=87.29  Aligned_cols=79  Identities=16%  Similarity=0.119  Sum_probs=60.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCC--------chhhhcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAG--------QERFRTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g--------~~~~~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++....+.                   ....+++|||+|        +++++.....+++.+|++|+|+|..
T Consensus        34 vGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~  113 (456)
T 4dcu_A           34 VGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGR  113 (456)
T ss_dssp             SSHHHHHHHHEEEEEC-----------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESS
T ss_pred             CcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCC
Confidence            7999999998876553                   234689999999        8899999999999999999999977


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.  +.....|+.+..+.  .+.|++||+|
T Consensus       114 ~~--~~~~d~~l~~~l~~--~~~pvilV~N  139 (456)
T 4dcu_A          114 EG--VTAADEEVAKILYR--TKKPVVLAVN  139 (456)
T ss_dssp             SC--SCHHHHHHHHHHTT--CCSCEEEEEE
T ss_pred             CC--CChHHHHHHHHHHH--cCCCEEEEEE
Confidence            63  33333444333322  5789999987

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.31  E-value=3.5e-13  Score=86.53  Aligned_cols=64  Identities=11%  Similarity=0.047  Sum_probs=46.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh---hHHH---HHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE---KSFD---NIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~---~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ....+.+|||+|+++|......+++.+|++|+|+|.++.   .+|+   ....++..+..   ..+| +++++|
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviN  153 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVN  153 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEE
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEE
Confidence            347899999999999999999999999999999999875   3442   22222222222   2454 888876

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.29  E-value=1.9e-12  Score=81.84  Aligned_cols=62  Identities=15%  Similarity=0.110  Sum_probs=49.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ...+.+|||+|+++|......+++.+|++|+|+|.++.... ....|+..+..   .++| +++++|
T Consensus        74 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~---~~ip~iivviN  136 (405)
T 2c78_A           74 KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQ---VGVPYIVVFMN  136 (405)
T ss_dssp             SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHH---TTCCCEEEEEE
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCEEEEEEE
Confidence            36789999999999999999999999999999999886543 34555555544   2567 778776

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.29  E-value=6.6e-13  Score=85.83  Aligned_cols=77  Identities=17%  Similarity=0.113  Sum_probs=58.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch-hhhc--------chhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE-RFRT--------ITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~-~~~~--------~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++....+.                   ....+.+|||+|++ ++..        ....+++.+|++|+|+|.
T Consensus       254 vGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~  333 (482)
T 1xzp_A          254 VGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDA  333 (482)
T ss_dssp             HHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEET
T ss_pred             CcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecC
Confidence            5999999988766432                   23578999999987 5532        245688999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +++.+++..+-| +.+     .+.|+++|+|
T Consensus       334 s~~~s~~~~~il-~~l-----~~~piivV~N  358 (482)
T 1xzp_A          334 SSPLDEEDRKIL-ERI-----KNKRYLVVIN  358 (482)
T ss_dssp             TSCCCHHHHHHH-HHH-----TTSSEEEEEE
T ss_pred             CCCCCHHHHHHH-HHh-----cCCCEEEEEE
Confidence            999888765432 322     3678999987

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.27  E-value=3.3e-12  Score=80.68  Aligned_cols=61  Identities=15%  Similarity=0.078  Sum_probs=46.7

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ..+.+|||+|+++|......+++.+|++|+|+|.++....+..+.| ..++.   .++| +++++|
T Consensus        66 ~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviN  127 (397)
T 1d2e_A           66 RHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVN  127 (397)
T ss_dssp             CEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEE
T ss_pred             eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEE
Confidence            6789999999999998889999999999999999986544433334 33332   3567 677776

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.27  E-value=4.2e-13  Score=87.07  Aligned_cols=76  Identities=18%  Similarity=0.211  Sum_probs=57.6

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC---hhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN---EKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~   59 (83)
                      +|||||+.++....+.                  ....+.+|||+|++.|..++..+++.+|++++|+|.++   +++++
T Consensus        15 ~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e   94 (501)
T 1zo1_I           15 HGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIE   94 (501)
T ss_dssp             SSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTSSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHH
T ss_pred             CCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECCEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHH
Confidence            6999999887643221                  23478999999999999999999999999999999988   45444


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.    .+.   ..++|+++++|
T Consensus        95 ~l~----~~~---~~~vPiIVviN  111 (501)
T 1zo1_I           95 AIQ----HAK---AAQVPVVVAVN  111 (501)
T ss_dssp             HHH----HHH---HTTCCEEEEEE
T ss_pred             HHH----HHH---hcCceEEEEEE
Confidence            332    222   24688999887

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.26  E-value=1.3e-12  Score=84.12  Aligned_cols=77  Identities=13%  Similarity=0.054  Sum_probs=49.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcch--------hhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTIT--------TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~--------~~~~~~~~~~ilv~d~~   53 (83)
                      +||||++.++....+.                   ....+.+|||+|..++....        ..+++.+|++++|+|.+
T Consensus       235 vGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s  314 (462)
T 3geh_A          235 VGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAA  314 (462)
T ss_dssp             SSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTEEEEECC--------------------CCCCSCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccC
Confidence            6999999998765331                   34678999999987654332        34688999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.+... ..|++.+.     ..|+++|+|
T Consensus       315 ~~~~~~~-~~i~~~l~-----~~piivV~N  338 (462)
T 3geh_A          315 TGWTTGD-QEIYEQVK-----HRPLILVMN  338 (462)
T ss_dssp             TCSCHHH-HHHHHHHT-----TSCEEEEEE
T ss_pred             CCCCHHH-HHHHHhcc-----CCcEEEEEE
Confidence            9877655 44555442     368999987

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.26  E-value=2.4e-12  Score=80.88  Aligned_cols=78  Identities=6%  Similarity=-0.046  Sum_probs=57.8

Q ss_pred             CCcceeeeeeccCcc---------c-eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCF---------Q-HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE   70 (83)
Q Consensus         1 ~GKss~~~~~~~~~~---------~-~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~   70 (83)
                      +|||||+.++.....         . ...++.+|||+|+++|.......++.+|++|+|+|  +...+...++|+..+..
T Consensus        32 ~GKSTL~~~L~~~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd--~~g~~~qt~e~~~~~~~  109 (370)
T 2elf_A           32 SGRTSLAANLGKKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP--PQGLDAHTGECIIALDL  109 (370)
T ss_dssp             SSHHHHHHTTSEEEEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC--TTCCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhCCEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc--CCCCcHHHHHHHHHHHH
Confidence            699999988862211         0 34579999999999998888888899999999999  45566667777766654


Q ss_pred             hcCCCceE-EEEeC
Q psy16649         71 NASANVEK-MLLGN   83 (83)
Q Consensus        71 ~~~~~~pi-ilvgN   83 (83)
                      .   .+|. +++.|
T Consensus       110 ~---~i~~~ivvvN  120 (370)
T 2elf_A          110 L---GFKHGIIALT  120 (370)
T ss_dssp             T---TCCEEEEEEC
T ss_pred             c---CCCeEEEEEE
Confidence            3   3454 55555

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.25  E-value=1.1e-12  Score=86.74  Aligned_cols=66  Identities=15%  Similarity=0.070  Sum_probs=45.8

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh---HHHHHHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK---SFDNIKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~---s~~~~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ...+.||||+|+++|......+++.+|++|+|+|.++..   +|....++.+.+..... ...|+++|+|
T Consensus       244 ~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvN  313 (611)
T 3izq_1          244 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMN  313 (611)
T ss_dssp             SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEE
T ss_pred             CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEe
Confidence            358999999999999999999999999999999998742   12111222222222222 2345888887

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.23  E-value=4.3e-12  Score=84.89  Aligned_cols=62  Identities=23%  Similarity=0.335  Sum_probs=53.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|...+..+++.+|++|+|+|.++..+++....|.. +.+   .++|+++|+|
T Consensus        76 ~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviN  137 (691)
T 1dar_A           76 DHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFAN  137 (691)
T ss_dssp             TEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEE
T ss_pred             CeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEE
Confidence            4689999999999999999999999999999999999888888777754 322   3688899887

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.21  E-value=3.1e-11  Score=76.44  Aligned_cols=59  Identities=14%  Similarity=0.158  Sum_probs=45.6

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|+++|..........+|++|+|+|.++    +++++.+..|    ...  ...|+++++|
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~l--~~~~iivv~N  143 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMAL----EIL--GIDKIIIVQN  143 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHH----HHT--TCCCEEEEEE
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHH----HHc--CCCeEEEEEE
Confidence            689999999999998888888889999999999994    5666665543    221  2347888876

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.20  E-value=1.1e-11  Score=80.02  Aligned_cols=76  Identities=11%  Similarity=0.138  Sum_probs=57.7

Q ss_pred             CCcceeeeeeccCc-------cc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC-
Q psy16649          1 SGENLCTLQIFRGC-------FQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN-   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~-------~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~-   54 (83)
                      +|||||+.++....       +.                  ....+.+|||+|+++|......+++.+|++|+|+|.++ 
T Consensus        30 ~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g  109 (482)
T 1wb1_A           30 HGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEG  109 (482)
T ss_dssp             SSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTC
T ss_pred             ChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCC
Confidence            69999998887654       11                  23689999999999999999999999999999999998 


Q ss_pred             --hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 --EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 --~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                        +++++.+.    .++.   ..+|+++|+|
T Consensus       110 ~~~qt~e~l~----~~~~---~~ip~IvviN  133 (482)
T 1wb1_A          110 PKTQTGEHML----ILDH---FNIPIIVVIT  133 (482)
T ss_dssp             SCHHHHHHHH----HHHH---TTCCBCEEEE
T ss_pred             ccHHHHHHHH----HHHH---cCCCEEEEEE
Confidence              56655543    2222   2466677766

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.19  E-value=1e-11  Score=75.22  Aligned_cols=62  Identities=6%  Similarity=0.146  Sum_probs=46.3

Q ss_pred             EEEEEEeCCCch-------------hhhcchhhhccCCcEEE-EEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQE-------------RFRTITTAYYRGAMGIM-LVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~-------------~~~~~~~~~~~~~~~~i-lv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|..             .+..+...|++.+++++ +|+|.++..+......|.+.+.   +.+.|+++|+|
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~---~~~~~~i~V~N  200 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVIT  200 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC---TTCSSEEEEEE
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhC---CCCCeEEEEEE
Confidence            589999999963             46678888999999887 6899988655554444555543   35689999987

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.19  E-value=2.6e-11  Score=81.33  Aligned_cols=61  Identities=21%  Similarity=0.255  Sum_probs=50.4

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.++||||+|+++|...+..+++.+|++|+|+|.++..+.+....|.. +.   ..++|+++|+|
T Consensus        82 ~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviN  142 (704)
T 2rdo_7           82 HRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVN  142 (704)
T ss_pred             eeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEe
Confidence            789999999999999999999999999999999998876666555532 22   24688898887

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.19  E-value=2.5e-12  Score=80.51  Aligned_cols=62  Identities=19%  Similarity=0.384  Sum_probs=40.4

Q ss_pred             EEEEEEEeCCCc-------hhhhcchh-------hhccCCcEE-----------EEEEECCC-hhHHHHHH-HHHHHHHH
Q psy16649         18 NFHINYRDTAGQ-------ERFRTITT-------AYYRGAMGI-----------MLVYDITN-EKSFDNIK-NWIRNIEE   70 (83)
Q Consensus        18 ~~~l~i~Dt~g~-------~~~~~~~~-------~~~~~~~~~-----------ilv~d~~~-~~s~~~~~-~w~~~~~~   70 (83)
                      .+.+.+|||+|+       +++..+..       .|++.++++           +++|++++ ..++..+. .|++.+  
T Consensus        94 ~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l--  171 (361)
T 2qag_A           94 KLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI--  171 (361)
T ss_dssp             EEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT--
T ss_pred             ccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh--
Confidence            457999999999       88888887       888877665           48888887 67777776 455544  


Q ss_pred             hcCCCceEEEEeC
Q psy16649         71 NASANVEKMLLGN   83 (83)
Q Consensus        71 ~~~~~~piilvgN   83 (83)
                        ...+|+++|+|
T Consensus       172 --~~~~piIlV~N  182 (361)
T 2qag_A          172 --HNKVNIVPVIA  182 (361)
T ss_dssp             --CS-SCEEEEEE
T ss_pred             --ccCCCEEEEEE
Confidence              36799999987

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.19  E-value=4.1e-12  Score=79.25  Aligned_cols=62  Identities=13%  Similarity=0.148  Sum_probs=46.8

Q ss_pred             EEEEEeCCCchhh-------------hcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQERF-------------RTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~-------------~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+|||+|..++             ..+...|+++++++|+++|.++.+...  ..|++.++...+...|+++|+|
T Consensus       137 ~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~n  211 (360)
T 3t34_A          137 NLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLT  211 (360)
T ss_dssp             SEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEE
T ss_pred             CeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEe
Confidence            4789999998876             667889999999999999876654332  4455555555555678888876

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.18  E-value=8.9e-12  Score=81.34  Aligned_cols=62  Identities=16%  Similarity=0.153  Sum_probs=46.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+++|......+++.+|++|+|+|.++...-+. ..++..+   ...++|+++++|
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~---~~~~ipiivviN  142 (529)
T 2h5e_A           81 DCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVT---RLRDTPILTFMN  142 (529)
T ss_dssp             TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHH---TTTTCCEEEEEE
T ss_pred             CeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHH---HHcCCCEEEEEc
Confidence            4789999999999999888899999999999999988643221 2222222   224788999887

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.17  E-value=5e-11  Score=75.50  Aligned_cols=59  Identities=15%  Similarity=0.166  Sum_probs=45.1

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC----hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN----EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~----~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|+++|..........+|++|+|+|.++    +++++.+..|    ...  ...|+++++|
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~~--~~~~iivviN  145 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMAL----QII--GQKNIIIAQN  145 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHH----HHH--TCCCEEEEEE
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHH----HHc--CCCcEEEEEE
Confidence            789999999999998887788889999999999994    5566655543    222  2346777776

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.15  E-value=1.9e-11  Score=74.88  Aligned_cols=78  Identities=13%  Similarity=0.135  Sum_probs=55.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCch---------hhhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQE---------RFRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~---------~~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++....+.                   ....+.+|||+|++         .+......+++.+|++++|+|.
T Consensus        19 vGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~   98 (301)
T 1ega_A           19 VGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEG   98 (301)
T ss_dssp             SSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEET
T ss_pred             CCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeC
Confidence            6999999998765432                   23578999999987         2344456788999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++   +.....|+-+...  ..+.|+++++|
T Consensus        99 ~~---~~~~~~~i~~~l~--~~~~P~ilvlN  124 (301)
T 1ega_A           99 TR---WTPDDEMVLNKLR--EGKAPVILAVN  124 (301)
T ss_dssp             TC---CCHHHHHHHHHHH--SSSSCEEEEEE
T ss_pred             CC---CCHHHHHHHHHHH--hcCCCEEEEEE
Confidence            76   4444445433322  24788998886

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.13  E-value=3e-11  Score=80.89  Aligned_cols=62  Identities=19%  Similarity=0.239  Sum_probs=52.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+++|||+|+.+|......+++.+|++|+|+|.++..+++....|.. +.+   .++|+++|+|
T Consensus        74 ~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviN  135 (693)
T 2xex_A           74 GHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVN  135 (693)
T ss_dssp             TEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEE
T ss_pred             CeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEE
Confidence            4679999999999999889999999999999999999888877766643 333   3688888887

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.07  E-value=5e-11  Score=83.44  Aligned_cols=61  Identities=16%  Similarity=0.077  Sum_probs=47.3

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCce-EEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVE-KMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~p-iilvgN   83 (83)
                      ..+.||||+|+++|......+++.+|++|+|+|.++....+ ...|+..+...   ++| +++++|
T Consensus       359 ~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~l---gIP~IIVVIN  420 (1289)
T 3avx_A          359 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQV---GVPYIIVFLN  420 (1289)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHHH---TCSCEEEEEE
T ss_pred             EEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHHc---CCCeEEEEEe
Confidence            67899999999999999999999999999999999864333 33444455432   466 677776

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.05  E-value=2.2e-11  Score=79.82  Aligned_cols=61  Identities=18%  Similarity=0.181  Sum_probs=48.9

Q ss_pred             EEEEEeCCCchh-----------hhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQER-----------FRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~-----------~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+|||+|...           +......+++.+|++++|+|.++....+....|++.+.+   ...|+++|+|
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvilVlN  226 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HEDKIRVVLN  226 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEEEEE
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEEEEE
Confidence            588999999865           556778889999999999999887666777777776653   3578888876

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.05  E-value=1.7e-10  Score=77.00  Aligned_cols=63  Identities=10%  Similarity=0.076  Sum_probs=49.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+++|||+|+++|......+++.+|++++|+|.++.-..+. ..++..+..   .++|+++++|
T Consensus        72 ~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~N  134 (665)
T 2dy1_A           72 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVT  134 (665)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEE
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEec
Confidence            35789999999999999999999999999999999887644333 344444443   3688888887

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.03  E-value=1.9e-10  Score=69.41  Aligned_cols=61  Identities=11%  Similarity=0.152  Sum_probs=38.4

Q ss_pred             EEEEEEeCCCc-------hhhhcch-------hhhccC-------------CcEEEEEEECCChhHHHHHHHHHHHHHHh
Q psy16649         19 FHINYRDTAGQ-------ERFRTIT-------TAYYRG-------------AMGIMLVYDITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        19 ~~l~i~Dt~g~-------~~~~~~~-------~~~~~~-------------~~~~ilv~d~~~~~s~~~~~~w~~~~~~~   71 (83)
                      +.+.+|||+|.       +.+..+.       ..|++.             +|+++++.+.++......-..+++.+.. 
T Consensus        65 ~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~-  143 (274)
T 3t5d_A           65 LLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-  143 (274)
T ss_dssp             EEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT-
T ss_pred             EEEEEEECCCccccccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc-
Confidence            58999999997       2333333       444443             7789988877653322222345555433 


Q ss_pred             cCCCceEEEEeC
Q psy16649         72 ASANVEKMLLGN   83 (83)
Q Consensus        72 ~~~~~piilvgN   83 (83)
                         .+|+++|+|
T Consensus       144 ---~~pvi~V~n  152 (274)
T 3t5d_A          144 ---KVNIIPLIA  152 (274)
T ss_dssp             ---TSCEEEEES
T ss_pred             ---cCCEEEEEe
Confidence               789999987

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.00  E-value=2.4e-10  Score=73.00  Aligned_cols=79  Identities=16%  Similarity=0.109  Sum_probs=52.5

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcc-----------h-hhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTI-----------T-TAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~-----------~-~~~~~~~~~~ilv   49 (83)
                      +|||||+.++....+.                   ....+.+|||+|+.+....           + ..+++.+++++++
T Consensus       191 vGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv  270 (439)
T 1mky_A          191 VGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIV  270 (439)
T ss_dssp             SSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEE
T ss_pred             CCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEEEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEE
Confidence            7999999998765431                   1236789999998554322           1 3467889999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         50 YDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        50 ~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +|.++..+++.. .+...+.+   .+.|+++|+|
T Consensus       271 ~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~N  300 (439)
T 1mky_A          271 LDATQGITRQDQ-RMAGLMER---RGRASVVVFN  300 (439)
T ss_dssp             EETTTCCCHHHH-HHHHHHHH---TTCEEEEEEE
T ss_pred             EeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEE
Confidence            999987776653 22222222   4689999987

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.96  E-value=4.5e-10  Score=75.32  Aligned_cols=61  Identities=15%  Similarity=0.234  Sum_probs=48.4

Q ss_pred             EEEEEeCCCchhh---hcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQERF---RTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~~---~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+|||+|....   ......|++++|++++|+|.++..+......|.+.+..   ...|+++|+|
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlN  238 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVN  238 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEE
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEE
Confidence            5889999997663   45667899999999999999999888888777655542   3567888876

>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=98.95  E-value=1.4e-09  Score=62.58  Aligned_cols=77  Identities=14%  Similarity=0.251  Sum_probs=50.4

Q ss_pred             CCcceeeeeeccCccc-------------eEE----EEEEEeCCCch----------hhhcchhhhc---cCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------HNF----HINYRDTAGQE----------RFRTITTAYY---RGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~~~----~l~i~Dt~g~~----------~~~~~~~~~~---~~~~~~ilv~   50 (83)
                      |||||++.++....+.             ..+    .+.+|||+|+.          .++.....++   +.++++++++
T Consensus        37 ~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~  116 (210)
T 1pui_A           37 AGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLM  116 (210)
T ss_dssp             SSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEE
T ss_pred             CCHHHHHHHHhCCCccccccCCCccceeeEEEEecCCEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEE
Confidence            7999999998866521             111    37899999973          3444444555   5789999999


Q ss_pred             ECCChhHHHH--HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         51 DITNEKSFDN--IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~--~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |+++..++..  +..|+.    .  ..+|+++++|
T Consensus       117 d~~~~~~~~~~~~~~~~~----~--~~~~~~~v~n  145 (210)
T 1pui_A          117 DIRHPLKDLDQQMIEWAV----D--SNIAVLVLLT  145 (210)
T ss_dssp             ETTSCCCHHHHHHHHHHH----H--TTCCEEEEEE
T ss_pred             ECCCCCchhHHHHHHHHH----H--cCCCeEEEEe
Confidence            9998766542  333432    1  4578877765

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.91  E-value=3.1e-09  Score=65.15  Aligned_cols=64  Identities=14%  Similarity=0.064  Sum_probs=55.3

Q ss_pred             eEEEEEEEe-CC-----CchhhhcchhhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRD-TA-----GQERFRTITTAYYRGAMGIMLVYDITNEK-SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~D-t~-----g~~~~~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.++++| +.     .++++..+.+.+++++|++++|+|+++++ +++.+++|+..+..   .++|++||+|
T Consensus        48 D~V~~~~~~~~~g~I~~i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~N  118 (302)
T 2yv5_A           48 DYVWGEVVDPNTFAIEEVEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFN  118 (302)
T ss_dssp             CEEEEEEEETTEEEEEEECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEEC
T ss_pred             eEEEEEEccCCeEEEEeeCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEE
Confidence            567888888 43     48999999999999999999999999997 89999999987754   5789999988

>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=98.91  E-value=5e-10  Score=68.31  Aligned_cols=61  Identities=11%  Similarity=0.199  Sum_probs=40.9

Q ss_pred             EEEEEeCCCchh-------------hhcchhhhccCCcEEEEEEECCChhHH-HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         20 HINYRDTAGQER-------------FRTITTAYYRGAMGIMLVYDITNEKSF-DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        20 ~l~i~Dt~g~~~-------------~~~~~~~~~~~~~~~ilv~d~~~~~s~-~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+|||+|..+             +......+++.+|++++|+|.++.... .....+.+.+   ...+.|+++|+|
T Consensus       132 ~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~---~~~~~~~i~v~N  206 (315)
T 1jwy_B          132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVIT  206 (315)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEE
T ss_pred             CcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh---CCCCCcEEEEEc
Confidence            589999999753             566778899999999999998544311 1111222222   234688999887

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.91  E-value=4.3e-12  Score=83.72  Aligned_cols=38  Identities=21%  Similarity=0.102  Sum_probs=24.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...+.||||+|+++|......+++.+|++|+|+|.++.
T Consensus       254 ~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g  291 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQN  291 (592)
T ss_dssp             -----CCEEESSSEEEEECCC-------CCSEEEEEEC
T ss_pred             CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            36789999999999999989999999999999999863

>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=98.87  E-value=2e-09  Score=68.24  Aligned_cols=37  Identities=24%  Similarity=0.225  Sum_probs=23.9

Q ss_pred             EEEEEEeCCCchh----hhcchh---hhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQER----FRTITT---AYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~----~~~~~~---~~~~~~~~~ilv~d~~~~   55 (83)
                      +.+++|||+|+.+    .+.+..   .+++.+|++++|+|.++.
T Consensus        71 ~~i~lvDtpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             EEEEEEECCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            6799999999864    233333   457899999999999886

>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=98.83  E-value=8.2e-10  Score=65.08  Aligned_cols=57  Identities=11%  Similarity=0.064  Sum_probs=35.9

Q ss_pred             CCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHH----hc-CCCceEEEEeC
Q psy16649         26 TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEE----NA-SANVEKMLLGN   83 (83)
Q Consensus        26 t~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~----~~-~~~~piilvgN   83 (83)
                      .+||++++.+|..||.++|++|+|.|.+|++.++ .+.-++++..    .. -.++|++|.+|
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlAN  170 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSC  170 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEE
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeC
Confidence            4599999999999999999999999999986554 3332223322    11 15789999987

>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=98.81  E-value=3.1e-09  Score=66.19  Aligned_cols=63  Identities=11%  Similarity=0.160  Sum_probs=40.0

Q ss_pred             EEEEEEeCCCc-------------hhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQ-------------ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~-------------~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+|||+|.             +.+..+...|++.++.+++++...+. .+... .|.+.++...+...|+++|+|
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~-~~~~~-~~~~i~~~~~~~~~~~i~V~N  205 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANS-DLANS-DALKVAKEVDPQGQRTIGVIT  205 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTS-CGGGC-HHHHHHHHHCTTCTTEEEEEE
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCC-ccchh-HHHHHHHHhCcCCCceEEEec
Confidence            46899999995             25667888899888877776643332 12211 232333333445788999887

>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=98.74  E-value=1.1e-08  Score=64.36  Aligned_cols=36  Identities=19%  Similarity=0.067  Sum_probs=28.8

Q ss_pred             EEEEEEeCCCchhhh----cch---hhhccCCcEEEEEEECCC
Q psy16649         19 FHINYRDTAGQERFR----TIT---TAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~----~~~---~~~~~~~~~~ilv~d~~~   54 (83)
                      ..+++|||+|+.++.    .+.   ..+++++|++++|+|.++
T Consensus        66 ~~i~lvDtpGl~~~a~~~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           66 TTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             CEEEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             eEEEEEECCCCcccccccchHHHHHHHHHHhcCeEEEEEecCC
Confidence            579999999997753    233   335789999999999987

>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=98.65  E-value=9.9e-09  Score=63.02  Aligned_cols=58  Identities=9%  Similarity=0.070  Sum_probs=41.3

Q ss_pred             CCCchhhhcchhhhccCCcEEEEEEECCChhHHH---HHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         26 TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD---NIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        26 t~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~---~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .+||++++.+|..||.++||+|+|.|.+|++.++   ++.+....+.+.. -.++|++|.+|
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfAN  255 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSC  255 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEE
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeC
Confidence            4799999999999999999999999999997654   2222223333321 25799999987

>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=98.61  E-value=1.8e-08  Score=64.32  Aligned_cols=82  Identities=9%  Similarity=0.132  Sum_probs=57.1

Q ss_pred             CCcceeeeeeccCccc------------------e-EEEEEEEeCCCchh----hhcchhhh---ccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ------------------H-NFHINYRDTAGQER----FRTITTAY---YRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~-~~~l~i~Dt~g~~~----~~~~~~~~---~~~~~~~ilv~d~~~   54 (83)
                      ||||||+..+......                  . ...+.+||++|...    +..+...+   ...++.++.++|++ 
T Consensus       168 AGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls-  246 (416)
T 1udx_A          168 AGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA-  246 (416)
T ss_dssp             GCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT-
T ss_pred             CcHHHHHHHHHcCCccccCcccceecceeeEEEecCcceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc-
Confidence            6999999987665210                  1 15688999999732    22333333   34699999999998 


Q ss_pred             hhHHHHHHHHHHHHHHhcC--CCceEEEEeC
Q psy16649         55 EKSFDNIKNWIRNIEENAS--ANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w~~~~~~~~~--~~~piilvgN   83 (83)
                      ++++.++..|.+++.....  ...|.+||+|
T Consensus       247 ~~~~~~ls~g~~el~~la~aL~~~P~ILVlN  277 (416)
T 1udx_A          247 DEPLKTLETLRKEVGAYDPALLRRPSLVALN  277 (416)
T ss_dssp             SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEE
T ss_pred             cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEE
Confidence            7888999988888876532  2456666654

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.57  E-value=2.3e-08  Score=63.50  Aligned_cols=41  Identities=15%  Similarity=0.124  Sum_probs=24.2

Q ss_pred             EEEEEeCCCchhhhc-------chhhhccCCcEEEEEEECCChhHHHH
Q psy16649         20 HINYRDTAGQERFRT-------ITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus        20 ~l~i~Dt~g~~~~~~-------~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      .+++|||+|..++..       ....+++++|++++|+|.++.+++..
T Consensus        87 ~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i~~  134 (396)
T 2ohf_A           87 FLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITH  134 (396)
T ss_dssp             EEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC--------
T ss_pred             ccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCCcchhh
Confidence            599999999887543       45678899999999999998766543

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.55  E-value=2.9e-08  Score=63.40  Aligned_cols=79  Identities=11%  Similarity=0.131  Sum_probs=48.2

Q ss_pred             CCcceeeeeeccCccc----------------------------eEEEEEEEeCCCchhhh-------c-----------
Q psy16649          1 SGENLCTLQIFRGCFQ----------------------------HNFHINYRDTAGQERFR-------T-----------   34 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------------------~~~~l~i~Dt~g~~~~~-------~-----------   34 (83)
                      +|||||+..+....+.                            ....+.+||++|...+.       .           
T Consensus        42 aGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~  121 (418)
T 2qag_C           42 LGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFED  121 (418)
T ss_dssp             SSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHHHHHHHHHHHHHH
Confidence            6999999887654430                            22478999999987642       1           


Q ss_pred             -------chhhhccCCcEEEEEEECCCh-hHHHHHH-HHHHHHHHhcCCCceEEEEeC
Q psy16649         35 -------ITTAYYRGAMGIMLVYDITNE-KSFDNIK-NWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        35 -------~~~~~~~~~~~~ilv~d~~~~-~s~~~~~-~w~~~~~~~~~~~~piilvgN   83 (83)
                             +...+++++++.+++|.++.. .+|..+. .|++.+.    ..+|+++|+|
T Consensus       122 ~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVin  175 (418)
T 2qag_C          122 YLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIA  175 (418)
T ss_dssp             HTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEE
T ss_pred             HHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEE
Confidence                   123355667776777777664 5677665 6777664    3789999986

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=98.48  E-value=1.6e-08  Score=61.92  Aligned_cols=63  Identities=17%  Similarity=0.277  Sum_probs=34.0

Q ss_pred             EEEEEEEeCCCc-------hhhhcchh-------hhccCCcEEE-----------EEEECCC-hhHHHHHHHHHHHHHHh
Q psy16649         18 NFHINYRDTAGQ-------ERFRTITT-------AYYRGAMGIM-----------LVYDITN-EKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        18 ~~~l~i~Dt~g~-------~~~~~~~~-------~~~~~~~~~i-----------lv~d~~~-~~s~~~~~~w~~~~~~~   71 (83)
                      ...+.+|||+|+       +++..+..       .|++...+..           ++|..+. ..+|+.+..  +.+++.
T Consensus        75 ~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~--~~l~~l  152 (301)
T 2qnr_A           75 KLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDV--AFMKAI  152 (301)
T ss_dssp             CEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHH--HHHHHH
T ss_pred             ccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHH--HHHHHH
Confidence            357899999998       66666665       6666543321           4444332 234555541  333333


Q ss_pred             cCCCceEEEEeC
Q psy16649         72 ASANVEKMLLGN   83 (83)
Q Consensus        72 ~~~~~piilvgN   83 (83)
                      . ..+|+++|+|
T Consensus       153 ~-~~~~iilV~~  163 (301)
T 2qnr_A          153 H-NKVNIVPVIA  163 (301)
T ss_dssp             T-TTSCEEEEEC
T ss_pred             H-hcCCEEEEEE
Confidence            3 5678888886

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=98.37  E-value=2.8e-07  Score=58.02  Aligned_cols=36  Identities=22%  Similarity=0.190  Sum_probs=28.3

Q ss_pred             EEEEEEeCCCchhhh----cch---hhhccCCcEEEEEEECCC
Q psy16649         19 FHINYRDTAGQERFR----TIT---TAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~----~~~---~~~~~~~~~~ilv~d~~~   54 (83)
                      ..+++|||+|+.++.    .+.   ..+++.+|++++|+|.++
T Consensus        69 ~~i~lvDtpGl~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           69 THVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CEEEEEECCSCCCCCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             ceEEEEECCCccccccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            479999999987652    232   235789999999999986

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.33  E-value=5.3e-07  Score=59.26  Aligned_cols=63  Identities=17%  Similarity=0.096  Sum_probs=47.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.++++|.||+|+.+|..-...-++-+|++|+|.|...----+...-|. ...+   .++|++++-|
T Consensus        98 ~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~-~a~~---~~lp~i~fIN  160 (548)
T 3vqt_A           98 RDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMD-VCRM---RATPVMTFVN  160 (548)
T ss_dssp             TTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHH-HHHH---TTCCEEEEEE
T ss_pred             CCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHH-HHHH---hCCceEEEEe
Confidence            5678999999999999988889999999999999998753333334452 3332   3577777655

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=97.98  E-value=4.1e-07  Score=60.65  Aligned_cols=39  Identities=21%  Similarity=0.212  Sum_probs=35.3

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +..++++.||+|+.+|..-...-++-+|++|+|.|...-
T Consensus        65 ~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~G  103 (638)
T 3j25_A           65 ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDG  103 (638)
T ss_dssp             SSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCT
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCC
Confidence            567899999999999998889999999999999998864

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.88  E-value=8e-06  Score=51.31  Aligned_cols=51  Identities=18%  Similarity=0.328  Sum_probs=42.2

Q ss_pred             CCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         27 AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        27 ~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+|+|+.+.+.+++.++++++|+|+++++     ..|.+++.+.. .+.|+++|+|
T Consensus        54 ~~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~N  104 (368)
T 3h2y_A           54 LTDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGN  104 (368)
T ss_dssp             --CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEE
T ss_pred             CCHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEE
Confidence            357899999999999999999999999864     56877787766 4789999987

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.54  E-value=0.00023  Score=48.11  Aligned_cols=63  Identities=21%  Similarity=0.260  Sum_probs=45.4

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+++.||+|+-+|..-...-++-+|++|+|.|...--.-+...-|....+    .++|.+++-|
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~----~~lp~i~~iN  145 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANK----YGVPRIVYVN  145 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHH----HTCCEEEEEE
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHH----cCCCeEEEEc
Confidence            46899999999999998888889999999999999876433232333433222    2466666654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.52  E-value=2.3e-05  Score=49.20  Aligned_cols=53  Identities=17%  Similarity=0.222  Sum_probs=40.8

Q ss_pred             eCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         25 DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        25 Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ....+++|++..+.+++.++++++|+|++++++     .|.+++.+.. .+.|+++|+|
T Consensus        54 v~~~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~N  106 (369)
T 3ec1_A           54 VPLDDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGN  106 (369)
T ss_dssp             -----CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEE
T ss_pred             CcCCHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEE
Confidence            334689999999999999999999999999874     5666666665 4788999987

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.42  E-value=5e-05  Score=48.01  Aligned_cols=56  Identities=14%  Similarity=0.081  Sum_probs=38.6

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhh----hcc---hhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERF----RTI---TTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~----~~~---~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||++.+....-.                  ....+++.||+|--+-    ..+   .-...+.+|++++|.|.+++
T Consensus        83 vGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p  162 (376)
T 4a9a_A           83 VGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNKP  162 (376)
T ss_dssp             HHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEETTSH
T ss_pred             CCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccccCcc
Confidence            5899999887654322                  4467899999995321    111   12345789999999999987


Q ss_pred             h
Q psy16649         56 K   56 (83)
Q Consensus        56 ~   56 (83)
                      .
T Consensus       163 ~  163 (376)
T 4a9a_A          163 L  163 (376)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=97.38  E-value=0.0002  Score=42.31  Aligned_cols=62  Identities=11%  Similarity=-0.028  Sum_probs=35.8

Q ss_pred             EEEEEEeCCCchhhhcchh------hhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         19 FHINYRDTAGQERFRTITT------AYYRGAMGIMLVYDITN---EKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~------~~~~~~~~~ilv~d~~~---~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.||||+|+.+......      ..+.. +.++++.|.+.   ...+.....+......  ..+.|+++|+|
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~iv~N  179 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALN  179 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEEC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc--ccCCCeEEEEe
Confidence            5799999999987644322      24455 67777777653   3333332222211111  13678889887

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.31  E-value=6.1e-05  Score=46.96  Aligned_cols=36  Identities=14%  Similarity=0.060  Sum_probs=23.2

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      +.+.++||+|...   ........+|.+++|+|.++.+.
T Consensus       167 ~~~iliDT~Gi~~---~~~~l~~~~d~vl~V~d~~~~~~  202 (349)
T 2www_A          167 YDIILIETVGVGQ---SEFAVADMVDMFVLLLPPAGGDE  202 (349)
T ss_dssp             CSEEEEECCCC-----CHHHHHTTCSEEEEEECCC----
T ss_pred             CCEEEEECCCcch---hhhhHHhhCCEEEEEEcCCcchh
Confidence            3568999999521   12345678999999999987544

>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=97.24  E-value=0.00015  Score=49.67  Aligned_cols=60  Identities=8%  Similarity=0.151  Sum_probs=37.3

Q ss_pred             EEEEeCCCch-------------hhhcchhhhc-cCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         21 INYRDTAGQE-------------RFRTITTAYY-RGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        21 l~i~Dt~g~~-------------~~~~~~~~~~-~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.++||+|-.             ....+...|. ..+|.+++|.|.+..-+-+....+.+++.   +...|+++|.|
T Consensus       152 L~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~---~~g~pvIlVlN  225 (772)
T 3zvr_A          152 LTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVIT  225 (772)
T ss_dssp             EEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHC---TTCSSEEEEEE
T ss_pred             eEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHH---hcCCCEEEEEe
Confidence            6689999942             2344555666 47899999999886533222223333333   34678888765

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.07  E-value=0.0002  Score=46.17  Aligned_cols=70  Identities=16%  Similarity=0.145  Sum_probs=49.3

Q ss_pred             CCcceeeeeeccCcc---c----------------eEEEEEEEeCCCch--hhhcch--------hhhccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCF---Q----------------HNFHINYRDTAGQE--RFRTIT--------TAYYRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~---~----------------~~~~l~i~Dt~g~~--~~~~~~--------~~~~~~~~~~ilv~d   51 (83)
                      ||||++..++...-.   .                ......+||..|++  +.+..+        ..++..+.+.++|+|
T Consensus        50 sGKSTia~~La~~l~~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~l~~~~G~~vV~D  129 (469)
T 1bif_A           50 RGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVAVFD  129 (469)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCSEEEEE
T ss_pred             CCHHHHHHHHHHHHhccCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCEEEEe
Confidence            799999988764311   0                11334689999984  334443        667777888899999


Q ss_pred             CCChhHHHHHHHHHHHHHHh
Q psy16649         52 ITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        52 ~~~~~s~~~~~~w~~~~~~~   71 (83)
                      .++. +++..+.|.+.+++.
T Consensus       130 ~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          130 ATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             SCCC-SHHHHHHHHHHHHHH
T ss_pred             CCCC-CHHHHHHHHHHHHhc
Confidence            9998 667777888777654

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=96.93  E-value=0.00036  Score=44.33  Aligned_cols=35  Identities=17%  Similarity=0.137  Sum_probs=26.2

Q ss_pred             EEEEEeCCCchh-------hhcchhhhccCCcEEEEEEECCC
Q psy16649         20 HINYRDTAGQER-------FRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        20 ~l~i~Dt~g~~~-------~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      .+.+||++|...       .......+++.+|+++.|+|..+
T Consensus        86 ~i~lvD~pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           86 FLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             EEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ceEEEeccccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            589999999533       22234556789999999999875

>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=95.81  E-value=0.00094  Score=41.61  Aligned_cols=38  Identities=13%  Similarity=0.096  Sum_probs=26.8

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHH
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      .+.+.|+||+|...   ........+|.+++|+|.+..+.+
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~  208 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQL  208 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTT
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccH
Confidence            36789999999422   233345889999999987765443

>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=95.52  E-value=0.013  Score=35.54  Aligned_cols=53  Identities=17%  Similarity=0.064  Sum_probs=34.5

Q ss_pred             EEeCCCch-hhhcchhhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         23 YRDTAGQE-RFRTITTAYYRGAMGIMLVYDITNEKSFD--NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        23 i~Dt~g~~-~~~~~~~~~~~~~~~~ilv~d~~~~~s~~--~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      |-+.+|+. +........+..+|+++.|+|..++.+..  .+.+|+        .+.|.++|.|
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlN   58 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLN   58 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEE
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEE
Confidence            34557764 45556677889999999999999998865  344443        4677777765

>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=95.30  E-value=0.0039  Score=38.66  Aligned_cols=37  Identities=11%  Similarity=0.045  Sum_probs=24.7

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS   57 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s   57 (83)
                      .+.+.++||+|......   ...+.+|++++|+|.+..+.
T Consensus       148 ~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~  184 (341)
T 2p67_A          148 GYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDD  184 (341)
T ss_dssp             TCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC-----
T ss_pred             CCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHH
Confidence            35789999999644322   24689999999999876543

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=95.24  E-value=0.00077  Score=40.52  Aligned_cols=30  Identities=13%  Similarity=0.028  Sum_probs=21.5

Q ss_pred             CCcceeeeeeccCccc------------eE----EEEEEEeCCCch
Q psy16649          1 SGENLCTLQIFRGCFQ------------HN----FHINYRDTAGQE   30 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------~~----~~l~i~Dt~g~~   30 (83)
                      +||||++.++......            +.    ..+++|||+|..
T Consensus       110 vGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtpG~~  155 (262)
T 3cnl_A          110 TGKSTIINKLKGKRASSVGAQPGITKGIQWFSLENGVKILDTPGIL  155 (262)
T ss_dssp             SSHHHHHHHHHTTCC----------CCSCEEECTTSCEEESSCEEC
T ss_pred             CCHHHHHHHHhcccccccCCCCCCccceEEEEeCCCEEEEECCCcc
Confidence            6999999988765432            11    257899999964

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.88  E-value=0.022  Score=32.56  Aligned_cols=34  Identities=12%  Similarity=0.171  Sum_probs=21.7

Q ss_pred             EEEEEEeCCCchhhhcchhhhc-cCCcEEEEEEECCChh
Q psy16649         19 FHINYRDTAGQERFRTITTAYY-RGAMGIMLVYDITNEK   56 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~-~~~~~~ilv~d~~~~~   56 (83)
                      +.+.+|||+|+-    ..+.++ ..++.+++|+|.++..
T Consensus       109 ~d~iiidt~G~~----~~~~~~~~~~~~~i~vvd~~~~~  143 (221)
T 2wsm_A          109 CDLLLIENVGNL----ICPVDFDLGENYRVVMVSVTEGD  143 (221)
T ss_dssp             CSEEEEEEEEBS----SGGGGCCCSCSEEEEEEEGGGCT
T ss_pred             CCEEEEeCCCCC----CCCchhccccCcEEEEEeCCCcc
Confidence            456788888851    112222 3678899999987654

>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=91.82  E-value=0.69  Score=25.84  Aligned_cols=62  Identities=18%  Similarity=0.105  Sum_probs=40.0

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhc--CCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA--SANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~--~~~~piilvgN   83 (83)
                      .+.+-|.|+++..  .......+..+|.++++...+.. + ..+...++.+++..  .++.++.+|.|
T Consensus        75 ~yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N  138 (206)
T 4dzz_A           75 DYDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLIT  138 (206)
T ss_dssp             TSSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEEC
T ss_pred             CCCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEe
Confidence            3567899998754  23444556678999998876544 3 66777666665532  24566666655

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=91.01  E-value=1.3  Score=25.92  Aligned_cols=63  Identities=5%  Similarity=-0.052  Sum_probs=41.7

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+.+-|.|+++.-  .......+..+|.+|++... +..+...+....+.+++.. .+.++.+|.|
T Consensus       143 ~~yD~viiD~pp~~--~~~~~~~l~~aD~vivv~~~-~~~s~~~~~~~~~~l~~~~-~~~~~~vv~N  205 (267)
T 3k9g_A          143 YKYDYIVIDTNPSL--DVTLKNALLCSDYVIIPMTA-EKWAVESLDLFNFFVRKLN-LFLPIFLIIT  205 (267)
T ss_dssp             TTCSEEEEEECSSC--SHHHHHHHTTCSEEEEEEES-CTTHHHHHHHHHHHHHTTT-CCCCEEEEEE
T ss_pred             cCCCEEEEECcCCc--cHHHHHHHHHCCeEEEEeCC-ChHHHHHHHHHHHHHHHHh-ccCCEEEEEe
Confidence            34667899998743  22344556679999999886 4566777777777776553 4455555544

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=88.88  E-value=0.47  Score=26.44  Aligned_cols=12  Identities=17%  Similarity=0.459  Sum_probs=9.7

Q ss_pred             CCcceeeeeecc
Q psy16649          1 SGENLCTLQIFR   12 (83)
Q Consensus         1 ~GKss~~~~~~~   12 (83)
                      +|||++...+..
T Consensus        49 ~GKT~l~~~l~~   60 (226)
T 2chg_A           49 TGKTATAIALAR   60 (226)
T ss_dssp             SSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            699999887754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=87.85  E-value=0.62  Score=24.93  Aligned_cols=14  Identities=7%  Similarity=-0.116  Sum_probs=10.4

Q ss_pred             CCcceeeeeeccCc
Q psy16649          1 SGENLCTLQIFRGC   14 (83)
Q Consensus         1 ~GKss~~~~~~~~~   14 (83)
                      ||||++...+....
T Consensus        38 tGKt~lA~~i~~~~   51 (143)
T 3co5_A           38 SPFETVARYFHKNG   51 (143)
T ss_dssp             CCHHHHHGGGCCTT
T ss_pred             ccHHHHHHHHHHhC
Confidence            69998887776543

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=86.33  E-value=3.1  Score=23.77  Aligned_cols=53  Identities=8%  Similarity=-0.021  Sum_probs=38.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhc
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA   72 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~   72 (83)
                      ..+.+-|.|+++.-  .......+..+|.++++... +..+...+...++.+++..
T Consensus       117 ~~yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~-~~~~~~~~~~~~~~l~~~~  169 (245)
T 3ea0_A          117 SFYDYIIVDFGASI--DHVGVWVLEHLDELCIVTTP-SLQSLRRAGQLLKLCKEFE  169 (245)
T ss_dssp             HHCSEEEEEEESSC--CTTHHHHGGGCSEEEEEECS-SHHHHHHHHHHHHHHHTCS
T ss_pred             hhCCEEEEeCCCCC--chHHHHHHHHCCEEEEEecC-cHHHHHHHHHHHHHHHHhC
Confidence            34677889988643  22445567789999998765 5788888888888887654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=85.37  E-value=0.18  Score=28.47  Aligned_cols=12  Identities=25%  Similarity=0.296  Sum_probs=9.2

Q ss_pred             CCcceeeeeecc
Q psy16649          1 SGENLCTLQIFR   12 (83)
Q Consensus         1 ~GKss~~~~~~~   12 (83)
                      +|||+++.+...
T Consensus        14 sGKTT~ll~~~~   25 (184)
T 2orw_A           14 SGKTTELLSFVE   25 (184)
T ss_dssp             SSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            699999866553

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=84.61  E-value=0.86  Score=27.93  Aligned_cols=13  Identities=8%  Similarity=0.296  Sum_probs=10.4

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      +|||+++..+...
T Consensus        55 ~GKTtl~~~l~~~   67 (389)
T 1fnn_A           55 TGKTVTLRKLWEL   67 (389)
T ss_dssp             SSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            6999999887654

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=80.77  E-value=5.3  Score=22.75  Aligned_cols=52  Identities=12%  Similarity=-0.027  Sum_probs=36.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN   71 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~   71 (83)
                      ..+.+-|.|+++.-.  ......+..+|.++++.+. +..++..+....+.+.+.
T Consensus       130 ~~yD~viiD~pp~~~--~~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~~  181 (254)
T 3kjh_A          130 DKKEAVVMDMGAGIE--HLTRGTAKAVDMMIAVIEP-NLNSIKTGLNIEKLAGDL  181 (254)
T ss_dssp             TCCSEEEEEECTTCT--TCCHHHHTTCSEEEEEECS-SHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCccc--HHHHHHHHHCCEEEEecCC-CHHHHHHHHHHHHHHHHc
Confidence            456788999987432  2445566889999999875 567777777766655444

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=80.62  E-value=3.7  Score=24.70  Aligned_cols=13  Identities=8%  Similarity=0.245  Sum_probs=10.4

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      +|||++...+...
T Consensus        59 ~GKT~la~~la~~   71 (324)
T 3u61_B           59 TGKTTVAKALCHD   71 (324)
T ss_dssp             SSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            6999999887654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=80.43  E-value=0.35  Score=28.90  Aligned_cols=23  Identities=13%  Similarity=-0.022  Sum_probs=13.8

Q ss_pred             hhhhccCCcEEEEEEECCChhHH
Q psy16649         36 TTAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus        36 ~~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      ......++|.++.|.|..++.+.
T Consensus        15 ~~~~l~~~D~vl~VvDar~P~~~   37 (262)
T 3cnl_A           15 IKDLLRLVNTVVEVRDARAPFAT   37 (262)
T ss_dssp             HHHHHTTCSEEEEEEETTSTTTT
T ss_pred             HHHHHhhCCEEEEEeeCCCCCcC
Confidence            34455666666666666665544

---

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	83
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-13
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-12
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	6e-12
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	3e-11
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	5e-10
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	5e-10
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-09
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-09
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-09
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-08
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	6e-08
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-07
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-07
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-07
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	4e-07
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-05
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	3e-05
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-05
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	3e-04
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	0.001
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	0.001
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	0.003

>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 = 59.4 bits (143), Expect = 2e-13
 Identities = 55/67 (82%), Positives = 60/67 (89%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
               +   DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI+NWIRNIEE+ASA+V
Sbjct: 53  KRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADV 112

Query: 77  EKMLLGN 83
           EKM+LGN
Sbjct: 113 EKMILGN 119

>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 = 57.9 bits (139), Expect = 1e-12
 Identities = 33/69 (47%), Positives = 52/69 (75%)

Query: 15  FQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASA 74
                 +   DTAGQERFRTIT++YYRG+ GI++VYD+T+++SF+ +K W++ I+  A++
Sbjct: 51  DGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATS 110

Query: 75  NVEKMLLGN 83
            V K+L+GN
Sbjct: 111 TVLKLLVGN 119

>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 = 55.6 bits (133), Expect = 6e-12
 Identities = 34/50 (68%), Positives = 39/50 (78%)

Query: 15 FQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW 64
                +   DTAGQERFRTITTAYYRGAMGI+LVYDIT+E++F NIK W
Sbjct: 47 NGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQW 96

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.7 bits (128), Expect = 3e-11
 Identities = 35/70 (50%), Positives = 46/70 (65%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                  +   DTAGQERFR++T AYYR A  ++L+YD+TN+ SFDNI+ W+  I E A 
Sbjct: 51  VDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ 110

Query: 74  ANVEKMLLGN 83
            +V  MLLGN
Sbjct: 111 HDVALMLLGN 120

>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 = 50.6 bits (120), Expect = 5e-10
 Identities = 30/67 (44%), Positives = 47/67 (70%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
                   DTAGQER+R IT+AYYRGA+G +LVYDI    +++N++ W++ + ++A +N+
Sbjct: 51  KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNI 110

Query: 77  EKMLLGN 83
             ML+GN
Sbjct: 111 VIMLVGN 117

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.6 bits (120), Expect = 5e-10
 Identities = 33/67 (49%), Positives = 44/67 (65%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
               +   DTAGQERFR+IT +YYR A  ++L YDIT E+SF  +  W+R IE+ AS  V
Sbjct: 52  EKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKV 111

Query: 77  EKMLLGN 83
             +L+GN
Sbjct: 112 ITVLVGN 118

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 49.9 bits (118), Expect = 1e-09
 Identities = 35/70 (50%), Positives = 49/70 (70%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                  +   DTAGQER+RTITTAYYRGAMG +L+YDITNE+SF+ +++W   I+  + 
Sbjct: 49  RNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW 108

Query: 74  ANVEKMLLGN 83
            N + +L+GN
Sbjct: 109 DNAQVLLVGN 118

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.1 bits (116), Expect = 2e-09
 Identities = 28/66 (42%), Positives = 41/66 (62%)

Query: 16  QHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASAN 75
            +   +   DTAGQERFRT+T +YYRGA G++LVYD+T   +F  + NW+  +E   + N
Sbjct: 53  GNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRN 112

Query: 76  VEKMLL 81
               +L
Sbjct: 113 DIVNML 118

>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 = 49.1 bits (116), Expect = 2e-09
 Identities = 26/67 (38%), Positives = 42/67 (62%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANV 76
               +   DTAGQERFR +T +YYRGA G ++VYDIT   +++++ +W+ +     + N 
Sbjct: 51  QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNT 110

Query: 77  EKMLLGN 83
             +L+GN
Sbjct: 111 VIILIGN 117

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (109), Expect = 2e-08
 Identities = 30/70 (42%), Positives = 45/70 (64%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                  +   DTAGQERFR++T +YYRGA G +LVYDIT+ ++++ + NW+ +    AS
Sbjct: 49  VGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS 108

Query: 74  ANVEKMLLGN 83
            N+  +L GN
Sbjct: 109 QNIVIILCGN 118

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.3 bits (106), Expect = 6e-08
 Identities = 30/68 (44%), Positives = 50/68 (73%), Gaps = 1/68 (1%)

Query: 17  HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEN-ASAN 75
              H+   DTAGQERFR++TTA++R AMG +L++D+T+++SF N++NW+  ++ N    N
Sbjct: 62  FKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCEN 121

Query: 76  VEKMLLGN 83
            + +L+GN
Sbjct: 122 PDIVLIGN 129

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.5 bits (104), Expect = 1e-07
 Identities = 27/78 (34%), Positives = 41/78 (52%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L           ++   DTAGQERF  +   YYR + G +LVYDIT+E SF  +KNW+
Sbjct: 39  SFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWV 98

Query: 66  RNIEENASANVEKMLLGN 83
           + + +     +   ++GN
Sbjct: 99  KELRKMLGNEICLCIVGN 116

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.8 bits (102), Expect = 1e-07
 Identities = 27/78 (34%), Positives = 39/78 (50%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L            +   DTAGQERFR++  +Y R +   ++VYDITN  SF     WI
Sbjct: 36  DFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWI 95

Query: 66  RNIEENASANVEKMLLGN 83
            ++     ++V  ML+GN
Sbjct: 96  DDVRTERGSDVIIMLVGN 113

>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 = 43.7 bits (102), Expect = 2e-07
 Identities = 30/70 (42%), Positives = 48/70 (68%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                  +   DTAGQE FR+IT +YYRGA G +LVYDIT  ++F+++ +W+ +  +++S
Sbjct: 47  IDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSS 106

Query: 74  ANVEKMLLGN 83
           +N+  ML+GN
Sbjct: 107 SNMVIMLIGN 116

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (99), Expect = 4e-07
 Identities = 31/78 (39%), Positives = 42/78 (53%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L                DTAGQER+ ++   YYRGA   ++VYDITNE+SF   KNW+
Sbjct: 42  AFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWV 101

Query: 66  RNIEENASANVEKMLLGN 83
           + ++  AS N+   L GN
Sbjct: 102 KELQRQASPNIVIALSGN 119

>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 = 38.1 bits (87), Expect = 3e-05
 Identities = 13/70 (18%), Positives = 27/70 (38%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                + +   DTAGQE +  +    Y      ++ + + +  SF+N+K        +  
Sbjct: 46  IGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC 105

Query: 74  ANVEKMLLGN 83
                +L+G 
Sbjct: 106 PKTPFLLVGT 115

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.7 bits (86), Expect = 3e-05
 Identities = 27/78 (34%), Positives = 42/78 (53%)

Query: 6   CTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI 65
             L       +H       DTAGQERF ++   YYR A   ++VYD+T  +SF   ++W+
Sbjct: 39  AFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWV 98

Query: 66  RNIEENASANVEKMLLGN 83
           + + E AS ++   L+GN
Sbjct: 99  KELHEQASKDIIIALVGN 116

>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 = 36.9 bits (84), Expect = 7e-05
 Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 1/71 (1%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNI-EENA 72
               N   N  D  GQ++ R +   YY G  G++ V D  +    D  +  +  I  +  
Sbjct: 51  VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDRE 110

Query: 73  SANVEKMLLGN 83
             +   ++  N
Sbjct: 111 MRDAIILIFAN 121

>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 = 35.4 bits (80), Expect = 3e-04
 Identities = 13/70 (18%), Positives = 28/70 (40%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                 ++   DTAGQE +  +    Y      ++ + + +  SF+N++        +  
Sbjct: 48  VDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC 107

Query: 74  ANVEKMLLGN 83
            N   +L+G 
Sbjct: 108 PNTPIILVGT 117

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.4 bits (75), Expect = 0.001
 Identities = 25/70 (35%), Positives = 39/70 (55%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                      DTAG ERFR +   YYRG+   ++VYDIT E++F  +KNW+R + ++  
Sbjct: 48  YQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP 107

Query: 74  ANVEKMLLGN 83
            ++   + GN
Sbjct: 108 PSIVVAIAGN 117

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.0 bits (74), Expect = 0.001
 Identities = 21/62 (33%), Positives = 33/62 (53%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
              H   +   DTAGQERFR++ T +YRG+   +L + + + +SF N+ NW +     A 
Sbjct: 50  VDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYAD 109

Query: 74  AN 75
             
Sbjct: 110 VK 111

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.3 bits (72), Expect = 0.003
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 14  CFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENAS 73
                  ++  DTAGQE +  +   Y R   G + V+ I N KSF++I  +   I+    
Sbjct: 46  IDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD 105

Query: 74  A-NVEKMLLGN 83
           + +V  +L+GN
Sbjct: 106 SDDVPMVLVGN 116

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	83
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.93
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.92
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.92
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.92
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.92
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.92
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.92
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.91
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.91
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.91
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.91
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.9
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.9
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.89
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.89
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.88
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.88
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.86
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.86
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.86
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.85
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.85
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.84
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.84
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.83
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.78
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.77
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.7
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.65
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.63
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.58
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.52
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.51
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.44
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.39
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.36
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.28
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.04
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.96
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.89
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.86
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.85
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.81
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.64
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.59
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.55
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.51
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.4
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.36
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.31
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.3
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.06
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.03
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.0
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.95
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.89
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.87
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.78
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.35
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.35
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	95.98
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	95.92
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.87
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	94.86
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	94.16
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	85.17
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	82.49
d1ofua2	109	Cell-division protein FtsZ {Pseudomonas aeruginosa	82.37
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	82.16
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	81.93
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	81.67
d1w5fa2	121	Cell-division protein FtsZ {Thermotoga maritima [T	81.51
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	81.46
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	81.37
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	81.06
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	80.42
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	80.22

>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=99.94  E-value=4e-27  Score=133.26  Aligned_cols=83  Identities=22%  Similarity=0.327  Sum_probs=74.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   +.+++++||++|++.|..+++.|+++++++|+|||+++++||+++
T Consensus        13 vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~   92 (177)
T d1kmqa_          13 CGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENI   92 (177)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCCcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHH
Confidence            6999999999998877                   778999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..|.........+++|++||||
T Consensus        93 ~~~~~~~~~~~~~~~piilvgn  114 (177)
T d1kmqa_          93 PEKWTPEVKHFCPNVPIILVGN  114 (177)
T ss_dssp             HHTHHHHHHHHSTTSCEEEEEE
T ss_pred             HHHHHHHHHHhCCCCceEEeee
Confidence            8655444444457899999997

>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=99.93  E-value=1e-26  Score=130.76  Aligned_cols=83  Identities=16%  Similarity=0.133  Sum_probs=66.6

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.++....+.                  ..+.+++||++|+++++.+++.|++++|++|+|||+++++||+++.
T Consensus        12 vGKTsLi~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~   91 (168)
T d2gjsa1          12 VGKSALARIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKAS   91 (168)
T ss_dssp             SSHHHHHHHHHTC---------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHH
T ss_pred             cCHHHHHHHHhCCccCCcCCeeeeeecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccccccc
Confidence            6999999998876664                  7799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-CCCceEEEEeC
Q psy16649         63 NWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~-~~~~piilvgN   83 (83)
                      .|+.++.... .+.+|++||||
T Consensus        92 ~~~~~i~~~~~~~~~piilvgn  113 (168)
T d2gjsa1          92 ELRVQLRRARQTDDVPIILVGN  113 (168)
T ss_dssp             HHHHHHHHHCC--CCCEEEEEE
T ss_pred             cccchhhcccccccceEEEeec
Confidence            9999998765 36799999998

>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=99.93  E-value=7.4e-27  Score=131.63  Aligned_cols=82  Identities=29%  Similarity=0.573  Sum_probs=73.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+++++||++|++++..+++.++++++++++|||+++++||++
T Consensus        14 vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~   93 (170)
T d1i2ma_          14 TGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKN   93 (170)
T ss_dssp             SSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTT
T ss_pred             cCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhccccccccccch
Confidence            7999999999888766                    66899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+.. +++|++||||
T Consensus        94 ~~~~~~~~~~~~-~~~piilvgn  115 (170)
T d1i2ma_          94 VPNWHRDLVRVC-ENIPIVLCGN  115 (170)
T ss_dssp             HHHHHHHHHHHH-CSCCEEEEEE
T ss_pred             hHHHHHHHhhcc-CCCceeeecc
Confidence            999999998876 6899999997

>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=99.93  E-value=1.8e-26  Score=131.99  Aligned_cols=83  Identities=18%  Similarity=0.305  Sum_probs=74.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.||..+.|.                   +.+++++||++|+++|+.+++.++++++++++|||+++++||+++
T Consensus        14 vGKTSli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~   93 (191)
T d2ngra_          14 VGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENV   93 (191)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCCcCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHH
Confidence            6999999999999886                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..|..+......+++|+++|||
T Consensus        94 ~~~~~~~~~~~~~~~~i~lvgn  115 (191)
T d2ngra_          94 KEKWVPEITHHCPKTPFLLVGT  115 (191)
T ss_dssp             HHTHHHHHHHHCTTCCEEEEEE
T ss_pred             HHHHHHHHhhcCCCCceEEEec
Confidence            8654444444447899999997

>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=99.93  E-value=2.5e-26  Score=129.31  Aligned_cols=83  Identities=43%  Similarity=0.739  Sum_probs=77.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+++.+|||+|+++|..+++.++++++++++|||+++++||++
T Consensus        16 vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   95 (171)
T d2ew1a1          16 VGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRC   95 (171)
T ss_dssp             SSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhh
Confidence            7999999999988775                    67889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|+..+.+.....+|++||||
T Consensus        96 ~~~~~~~i~~~~~~~~~~ilvgn  118 (171)
T d2ew1a1          96 LPEWLREIEQYASNKVITVLVGN  118 (171)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             hhhhhhhhcccccccccEEEEEe
Confidence            99999999887778899999997

>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=99.93  E-value=2.5e-26  Score=130.49  Aligned_cols=83  Identities=16%  Similarity=0.384  Sum_probs=74.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|+                   ..+.+++||++|++.+..+++.++++++++++|||+++++||+.+
T Consensus        13 vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~   92 (179)
T d1m7ba_          13 CGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSV   92 (179)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCccCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHH
Confidence            7999999999999886                   779999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCceEEEEeC
Q psy16649         62 KNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..|.........+++|++||||
T Consensus        93 ~~~~~~~~~~~~~~~~iilVgn  114 (179)
T d1m7ba_          93 LKKWKGEIQEFCPNTKMLLVGC  114 (179)
T ss_dssp             HHTHHHHHHHHCTTCEEEEEEE
T ss_pred             HHHHHHHHhccCCcceEEEEEe
Confidence            8765554444447999999998

>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=99.93  E-value=3.2e-26  Score=128.79  Aligned_cols=83  Identities=45%  Similarity=0.791  Sum_probs=77.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+++++|||+|++++..+++.++++++++|+|||+++++|+.+
T Consensus        16 vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~   95 (169)
T d3raba_          16 VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNA   95 (169)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhh
Confidence            7999999999988776                    77899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+..+.....+++|+++|||
T Consensus        96 ~~~~~~~~~~~~~~~~~iivv~n  118 (169)
T d3raba_          96 VQDWSTQIKTYSWDNAQVLLVGN  118 (169)
T ss_dssp             HHHHHHHHHHHCCSCCEEEEEEE
T ss_pred             hhhhhhhhhcccCCcceEEEEEe
Confidence            99999888877778899999997

>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=99.93  E-value=2.8e-26  Score=130.71  Aligned_cols=82  Identities=24%  Similarity=0.509  Sum_probs=73.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|.                   ..+++++||++|+++|..++..++++++++++|||+++++||+++
T Consensus        20 vGKTsLi~r~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~   99 (185)
T d2atxa1          20 VGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNV   99 (185)
T ss_dssp             SSHHHHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHhhCCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHH
Confidence            6999999999998876                   678999999999999999999999999999999999999999988


Q ss_pred             HH-HHHHHHHhcCCCceEEEEeC
Q psy16649         62 KN-WIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~-w~~~~~~~~~~~~piilvgN   83 (83)
                      .. |.+.++.. .+++|+++|||
T Consensus       100 ~~~~~~~~~~~-~~~~~~ilvgn  121 (185)
T d2atxa1         100 KEEWVPELKEY-APNVPFLLIGT  121 (185)
T ss_dssp             HHTHHHHHHHH-STTCCEEEEEE
T ss_pred             HHHHHHHHHhc-CCCCCeeEeee
Confidence            65 55555555 47899999997

>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=99.93  E-value=5e-26  Score=127.19  Aligned_cols=83  Identities=34%  Similarity=0.638  Sum_probs=78.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.|+..+.|.                    ..+++.+||++|++++..+++.++++++++++|||+++++||++
T Consensus        11 vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   90 (164)
T d1yzqa1          11 VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQ   90 (164)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhh
Confidence            7999999999988877                    67999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|+.++.+...+++|++||||
T Consensus        91 i~~~~~~~~~~~~~~~~iilvgn  113 (164)
T d1yzqa1          91 TTKWIDDVRTERGSDVIIMLVGN  113 (164)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEEEE
T ss_pred             hHhhHHHHHHhcCCCceEEEEec
Confidence            99999999887778999999997

>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=99.93  E-value=5.8e-26  Score=127.30  Aligned_cols=83  Identities=35%  Similarity=0.687  Sum_probs=78.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.|+..+.|.                    ..+++++||++|+++++.++..++++++++++|||+++++||+.
T Consensus        15 vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~   94 (166)
T d1z0fa1          15 VGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNH   94 (166)
T ss_dssp             SSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHH
Confidence            6999999999988776                    77899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+..+.+...+.+|++++||
T Consensus        95 ~~~~~~~~~~~~~~~~~iilvgn  117 (166)
T d1z0fa1          95 LSSWLTDARNLTNPNTVIILIGN  117 (166)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHhhccccceEEEEcc
Confidence            99999999887778999999997

>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=99.92  E-value=3.2e-26  Score=128.47  Aligned_cols=83  Identities=35%  Similarity=0.677  Sum_probs=71.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.|+..+.|.                    ..+++++||++|+++++.+++.++++++++++|||+++++||++
T Consensus        14 vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~   93 (167)
T d1z08a1          14 VGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQK   93 (167)
T ss_dssp             SCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHh
Confidence            7999999999998887                    57999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++.+.....+.+|++||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~ilvgn  116 (167)
T d1z08a1          94 VKNWVKELRKMLGNEICLCIVGN  116 (167)
T ss_dssp             HHHHHHHHHHHHGGGSEEEEEEE
T ss_pred             hhhhhhhcccccccccceeeecc
Confidence            99999988877668899999997

>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=99.92  E-value=4.6e-26  Score=128.24  Aligned_cols=83  Identities=28%  Similarity=0.493  Sum_probs=77.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      ||||||+.++..+.|.                   ..+.+++||++|++++..+++.|+++++++++|||+++++||+++
T Consensus        15 vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~   94 (169)
T d1x1ra1          15 VGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHV   94 (169)
T ss_dssp             SSHHHHHHHHHHSSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             cCHHHHHHHHHhCCCCcccCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhhhcc
Confidence            7999999999988776                   779999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      +.|+.++.+.. ..++|++||||
T Consensus        95 ~~~~~~i~~~~~~~~~p~ilvgn  117 (169)
T d1x1ra1          95 DRFHQLILRVKDRESFPMILVAN  117 (169)
T ss_dssp             HHHHHHHHHHHTSSCCCEEEEEE
T ss_pred             chhhHHHHhhccccCccEEEEec
Confidence            99999987764 46899999997

>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=99.92  E-value=1.4e-25  Score=126.48  Aligned_cols=83  Identities=69%  Similarity=1.064  Sum_probs=55.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+++|||+|++.+..+++.++++++++|+|||+++++||+.
T Consensus        17 vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   96 (173)
T d2fu5c1          17 VGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   96 (173)
T ss_dssp             C----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHH
Confidence            7999999999998876                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|.+++......++|+++|||
T Consensus        97 ~~~~~~~~~~~~~~~~~iilv~~  119 (173)
T d2fu5c1          97 IRNWIRNIEEHASADVEKMILGN  119 (173)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHhhhhccCCceEEEEEe
Confidence            99999999877778899999997

>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=99.92  E-value=1.4e-25  Score=126.74  Aligned_cols=83  Identities=40%  Similarity=0.776  Sum_probs=78.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+.+||++|+++|..++..++++++++|+|||+++++||+.
T Consensus        15 vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~   94 (175)
T d2f9la1          15 VGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYEN   94 (175)
T ss_dssp             SSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchh
Confidence            7999999999988876                    77899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|++++.+..++++|++||||
T Consensus        95 ~~~~~~~i~~~~~~~~piilvgn  117 (175)
T d2f9la1          95 VERWLKELRDHADSNIVIMLVGN  117 (175)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhcCCCCcEEEEEe
Confidence            99999999988878899999997

>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=99.92  E-value=1.5e-25  Score=128.45  Aligned_cols=83  Identities=42%  Similarity=0.817  Sum_probs=78.0

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+++|||+|+++|..+++.++++|+++|+|||++++++|..
T Consensus        17 vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~   96 (194)
T d2bcgy1          17 VGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNG   96 (194)
T ss_dssp             SSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhh
Confidence            7999999999988876                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|...+.+....++|++||||
T Consensus        97 ~~~~~~~~~~~~~~~~~iilv~n  119 (194)
T d2bcgy1          97 VKMWLQEIDRYATSTVLKLLVGN  119 (194)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HhhhhhhhhhcccCCceEEEEEe
Confidence            99999999877778999999997

>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=99.92  E-value=1.2e-25  Score=125.84  Aligned_cols=82  Identities=33%  Similarity=0.620  Sum_probs=77.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.|+..+.|.                    ..+.+++||++|++++..+++.++++++++++|||+++++||++
T Consensus        13 vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   92 (164)
T d1z2aa1          13 VGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEA   92 (164)
T ss_dssp             SSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhh
Confidence            7999999999988876                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|++++.+.. +++|++||||
T Consensus        93 ~~~~~~~i~~~~-~~~~iilVgn  114 (164)
T d1z2aa1          93 ISSWREKVVAEV-GDIPTALVQN  114 (164)
T ss_dssp             HHHHHHHHHHHH-CSCCEEEEEE
T ss_pred             cccccccccccC-CCceEEEeec
Confidence            999999998877 6899999997

>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=99.92  E-value=2.9e-25  Score=124.54  Aligned_cols=83  Identities=33%  Similarity=0.673  Sum_probs=78.4

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.|+..+.|.                    ....+++||++|++++..+++.++++++++++|||+++++||+.
T Consensus        15 vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   94 (167)
T d1z0ja1          15 VGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFST   94 (167)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhh
Confidence            7999999999988876                    67888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|+.++.+...++.|++||||
T Consensus        95 ~~~~~~~~~~~~~~~~~iilvgn  117 (167)
T d1z0ja1          95 LKNWVRELRQHGPPSIVVAIAGN  117 (167)
T ss_dssp             HHHHHHHHHHHSCTTSEEEEEEE
T ss_pred             HHHhhhhhhhccCCcceEEEecc
Confidence            99999999888888999999997

>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=99.92  E-value=5.4e-26  Score=127.53  Aligned_cols=83  Identities=29%  Similarity=0.551  Sum_probs=77.6

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|.                   ..+.+++||++|++.+..+++.|+++++++|+|||+++++||+++
T Consensus        14 vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~   93 (167)
T d1c1ya_          14 VGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDL   93 (167)
T ss_dssp             SSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHcCCCCCccCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhH
Confidence            6999999999999887                   778999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. .+++|++||||
T Consensus        94 ~~~~~~~~~~~~~~~~p~ilvgn  116 (167)
T d1c1ya_          94 QDLREQILRVKDTEDVPMILVGN  116 (167)
T ss_dssp             HHHHHHHHHHHCCSCCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCeEEEEEE
Confidence            99999987754 47899999997

>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=99.92  E-value=3.4e-25  Score=124.54  Aligned_cols=83  Identities=41%  Similarity=0.755  Sum_probs=78.7

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.|+..+.|.                    ..+.+.+||++|+++|..+++.++++++++++|||+++++||++
T Consensus        17 vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   96 (170)
T d1r2qa_          17 VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR   96 (170)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHH
Confidence            7999999999998887                    67999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|...+.+...+++|++||||
T Consensus        97 ~~~~~~~~~~~~~~~~~iilvgn  119 (170)
T d1r2qa_          97 AKNWVKELQRQASPNIVIALSGN  119 (170)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHhhhhhhccCCCceEEeecc
Confidence            99999999887778999999997

>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=99.92  E-value=2.1e-25  Score=124.99  Aligned_cols=83  Identities=31%  Similarity=0.526  Sum_probs=77.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++||++|++++..++..++++++++++|||+++++||+++
T Consensus        15 vGKTsLl~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~   94 (167)
T d1xtqa1          15 VGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI   94 (167)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhh
Confidence            7999999999988876                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. .+++|++||||
T Consensus        95 ~~~~~~i~~~~~~~~~piilvgn  117 (167)
T d1xtqa1          95 KVIHGKLLDMVGKVQIPIMLVGN  117 (167)
T ss_dssp             HHHHHHHHHHHCSSCCCEEEEEE
T ss_pred             hhhhhhhhhcccccccceeeecc
Confidence            99999998765 46899999997

>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=99.92  E-value=1.4e-25  Score=126.54  Aligned_cols=83  Identities=28%  Similarity=0.508  Sum_probs=77.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|.                   ..+.+++||++|++++..+++.++++++++++|||+++++||+.+
T Consensus        17 vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   96 (173)
T d2fn4a1          17 VGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEV   96 (173)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeecccccccccchh
Confidence            7999999999998877                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++.+.+.. ..++|++||||
T Consensus        97 ~~~~~~i~~~~~~~~~p~ilvgn  119 (173)
T d2fn4a1          97 GKLFTQILRVKDRDDFPVVLVGN  119 (173)
T ss_dssp             HHHHHHHHHHHTSSCCCEEEEEE
T ss_pred             hhhhHHHHHHhccCCCceEEEEE
Confidence            99999987754 47899999997

>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=99.92  E-value=1.6e-25  Score=125.91  Aligned_cols=83  Identities=46%  Similarity=0.790  Sum_probs=69.6

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+++++|||+|+++++.+++.++++++++++|||+++++||+
T Consensus        17 vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   96 (170)
T d2g6ba1          17 VGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFD   96 (170)
T ss_dssp             SSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchh
Confidence            7999999999888875                     6789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+..|+.++.+..++..|+++|||
T Consensus        97 ~~~~~~~~~~~~~~~~~~iilv~~  120 (170)
T d2g6ba1          97 NIQAWLTEIHEYAQHDVALMLLGN  120 (170)
T ss_dssp             THHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             hhhhhhhhhhhccCCCceEEEEEe
Confidence            999999988887778899999986

>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=99.92  E-value=3.1e-25  Score=125.08  Aligned_cols=83  Identities=42%  Similarity=0.773  Sum_probs=78.6

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+.+||++|++.+..+++.+++++|++++|||+++++||+.
T Consensus        14 vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~   93 (173)
T d2a5ja1          14 VGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNH   93 (173)
T ss_dssp             SSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHh
Confidence            7999999999988876                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+|+.++.+..++++|++||||
T Consensus        94 ~~~~~~~~~~~~~~~~piilv~n  116 (173)
T d2a5ja1          94 LTSWLEDARQHSSSNMVIMLIGN  116 (173)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHHHHHHHHHhCCCCCeEEEEec
Confidence            99999999887778999999997

>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=99.92  E-value=3.1e-25  Score=124.99  Aligned_cols=83  Identities=40%  Similarity=0.720  Sum_probs=78.3

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+.+++||++|++++..+++.++++++++++|||.+++++|++
T Consensus        16 vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   95 (174)
T d2bmea1          16 TGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNA   95 (174)
T ss_dssp             SSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHH
Confidence            7999999999988876                    67889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.++.+..++++|+++|||
T Consensus        96 ~~~~~~~~~~~~~~~~piivv~n  118 (174)
T d2bmea1          96 LTNWLTDARMLASQNIVIILCGN  118 (174)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HhhhhcccccccCCceEEEEEEe
Confidence            99999999887778999999997

>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=99.91  E-value=4.7e-25  Score=125.24  Aligned_cols=82  Identities=20%  Similarity=0.445  Sum_probs=74.0

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.||..+.|.                   ..+++++||++|++.+..+++.++++++++++|||+++++||+++
T Consensus        16 vGKTsli~~~~~~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i   95 (183)
T d1mh1a_          16 VGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENV   95 (183)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCcccccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHH
Confidence            6999999999998876                   778999999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHhcCCCceEEEEeC
Q psy16649         62 KN-WIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~-w~~~~~~~~~~~~piilvgN   83 (83)
                      .. |...++.+. +++|++||||
T Consensus        96 ~~~~~~~~~~~~-~~~piilvgn  117 (183)
T d1mh1a_          96 RAKWYPEVRHHC-PNTPIILVGT  117 (183)
T ss_dssp             HHTHHHHHHHHS-TTSCEEEEEE
T ss_pred             HHHHHHHHHHhC-CCCcEEEEee
Confidence            86 555555554 7899999997

>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=99.91  E-value=2.1e-25  Score=125.37  Aligned_cols=83  Identities=25%  Similarity=0.438  Sum_probs=75.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|.                   ..+.+++||++|++++...+..++++++++++|||+++++||+++
T Consensus        13 vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~   92 (171)
T d2erxa1          13 VGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEEL   92 (171)
T ss_dssp             SSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT
T ss_pred             CCHHHHHHHHHhCCCCCccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEeecccccchhcc
Confidence            7999999999988875                   668999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc--CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA--SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~--~~~~piilvgN   83 (83)
                      ..|+.++.+..  .+++|++||||
T Consensus        93 ~~~~~~~~~~~~~~~~~piilVgn  116 (171)
T d2erxa1          93 KPIYEQICEIKGDVESIPIMLVGN  116 (171)
T ss_dssp             HHHHHHHHHHHC---CCCEEEEEE
T ss_pred             cchhhhhhhhhccCCCCcEEEEee
Confidence            99999887754  36899999997

>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=99.91  E-value=5.7e-25  Score=123.22  Aligned_cols=83  Identities=31%  Similarity=0.515  Sum_probs=76.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.|+..+.|.                   ..+++++||++|++.+..++..++++++++++|||+++++||+++
T Consensus        14 vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~   93 (167)
T d1kaoa_          14 VGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDI   93 (167)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCccCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhh
Confidence            7999999999988876                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|..++.... .+++|++||||
T Consensus        94 ~~~~~~~~~~~~~~~~piilvgn  116 (167)
T d1kaoa_          94 KPMRDQIIRVKRYEKVPVILVGN  116 (167)
T ss_dssp             HHHHHHHHHHTTTSCCCEEEEEE
T ss_pred             hchhhhhhhhccCCCCCEEEEEE
Confidence            99999987754 36899999997

>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=99.91  E-value=1.8e-24  Score=121.50  Aligned_cols=83  Identities=35%  Similarity=0.672  Sum_probs=77.8

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.||..+.|.                    ..+++++||++|++++..+++.++++++++++|||+++++||++
T Consensus        14 vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   93 (170)
T d1ek0a_          14 VGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIK   93 (170)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhh
Confidence            7999999999999877                    77899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..|+.+.........|++++||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~v~n  116 (170)
T d1ek0a_          94 ARHWVKELHEQASKDIIIALVGN  116 (170)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             hhhhhhhhccccccccceeeeec
Confidence            99999988887777899999986

>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=99.91  E-value=6.6e-25  Score=123.35  Aligned_cols=83  Identities=33%  Similarity=0.520  Sum_probs=73.9

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.++..+.|.                   ..+.+++||++|++++..+++.++++++++++|||+++++||+++
T Consensus        15 vGKTsli~~~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   94 (168)
T d1u8za_          15 VGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT   94 (168)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHH
T ss_pred             cCHHHHHHHHHhCCCCcccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhH
Confidence            7999999999888875                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|++++.+.. .+++|++||||
T Consensus        95 ~~~~~~i~~~~~~~~~piiivgn  117 (168)
T d1u8za_          95 ADFREQILRVKEDENVPFLLVGN  117 (168)
T ss_dssp             HHHHHHHHHHHCCTTSCEEEEEE
T ss_pred             HHHHHHHHHhhCCCCCcEEEEec
Confidence            99999998764 47899999997

>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=99.90  E-value=6.5e-25  Score=124.78  Aligned_cols=83  Identities=40%  Similarity=0.770  Sum_probs=74.9

Q ss_pred             CCcceeeeeeccCccc------------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ------------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVY   50 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~   50 (83)
                      +|||||+.++..+.|.                              ..+++++|||+|+++|+.+++.++++++++|+||
T Consensus        16 vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~   95 (186)
T d2f7sa1          16 VGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMF   95 (186)
T ss_dssp             SSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             cCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEEEE
Confidence            7999999999888765                              2468999999999999999999999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         51 DITNEKSFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        51 d~~~~~s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      |+++++||+.+..|+.++.... .+.+|++||||
T Consensus        96 d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~n  129 (186)
T d2f7sa1          96 DLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGN  129 (186)
T ss_dssp             ETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEE
T ss_pred             eccccccceeeeeccchhhhhccCCCceEEEEee
Confidence            9999999999999998887654 46799999997

>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=99.90  E-value=2.5e-24  Score=120.49  Aligned_cols=83  Identities=49%  Similarity=0.887  Sum_probs=76.2

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+++.+|||+|+++|+.+++.++++++++++|||.++++||++
T Consensus        13 vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   92 (166)
T d1g16a_          13 VGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTN   92 (166)
T ss_dssp             SSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHH
Confidence            7999999999988876                    67889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCceEEEEeC
Q psy16649         61 IKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++.|............|+++++|
T Consensus        93 ~~~~~~~~~~~~~~~~~~i~~~~  115 (166)
T d1g16a_          93 IKQWFKTVNEHANDEAQLLLVGN  115 (166)
T ss_dssp             HHHHHHHHHHHSCTTCEEEEEEE
T ss_pred             HHhhhhhhhccccCcceeeeecc
Confidence            99999888887777888888764

>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=99.90  E-value=3.2e-24  Score=121.49  Aligned_cols=78  Identities=18%  Similarity=0.350  Sum_probs=69.0

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIK   62 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~   62 (83)
                      +|||||+.+|..+.|.                  +.+.+++|||+|++++     .|++++|++|+|||+++++||+++.
T Consensus        16 vGKTsLi~~~~~~~f~~~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf~~~~   90 (175)
T d2bmja1          16 SGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAVS   90 (175)
T ss_dssp             TTHHHHHHHHHHSCCCCCCCSSCEEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHHHHHH
T ss_pred             CCHHHHHHHHHhCCCCCcCCccceeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhhhhhH
Confidence            7999999999988877                  7799999999999864     4889999999999999999999999


Q ss_pred             HHHHHHHHhc---CCCceEEEEeC
Q psy16649         63 NWIRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        63 ~w~~~~~~~~---~~~~piilvgN   83 (83)
                      .|++++....   .+++|+++|||
T Consensus        91 ~~~~~i~~~~~~~~~~~pi~lV~~  114 (175)
T d2bmja1          91 RLHGQLSSLRGEGRGGLALALVGT  114 (175)
T ss_dssp             HHHHHHHHHCC--CCCCEEEEEEE
T ss_pred             HHHHHHHHHhhcccCCccEEEEee
Confidence            9999887643   46789999985

>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=99.89  E-value=3.2e-24  Score=120.45  Aligned_cols=82  Identities=29%  Similarity=0.402  Sum_probs=72.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      +|||||+.||..+.|.                   +.+++++||++|++.+. .+..++++++++++|||+++++||+++
T Consensus        13 vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~   91 (168)
T d2atva1          13 VGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEV   91 (168)
T ss_dssp             SSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHhCCCCCccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeecccCCccchhhh
Confidence            7999999999998876                   77999999999998875 567799999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|........ .+++|++||||
T Consensus        92 ~~~~~~~~~~~~~~~~piilvgn  114 (168)
T d2atva1          92 LPLKNILDEIKKPKNVTLILVGN  114 (168)
T ss_dssp             HHHHHHHHHHHTTSCCCEEEEEE
T ss_pred             hhhcccccccccccCcceeeecc
Confidence            99887766543 46899999997

>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=99.89  E-value=5.4e-24  Score=119.65  Aligned_cols=83  Identities=30%  Similarity=0.540  Sum_probs=72.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      ||||||+.++..+.|.                   ..+.+++||++|++++...++.++++++++++|||+++++||+.+
T Consensus        16 vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   95 (171)
T d2erya1          16 VGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEI   95 (171)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHhCCCCcccCcccccceeeeeeecccccccccccccccccccccccccccccceEEEeeccccccchhhH
Confidence            7999999999988776                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CCCceEEEEeC
Q psy16649         62 KNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ..|+.++.+.. ....|++||||
T Consensus        96 ~~~~~~~~~~~~~~~~p~ilvgn  118 (171)
T d2erya1          96 YKFQRQILRVKDRDEFPMILIGN  118 (171)
T ss_dssp             HHHHHHHHHHHTSSCCSEEEEEE
T ss_pred             HHHhHHHHhhcccCCCCEEEEEe
Confidence            99999887654 46899999997

>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=99.89  E-value=1.1e-23  Score=117.89  Aligned_cols=83  Identities=30%  Similarity=0.558  Sum_probs=77.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~   61 (83)
                      ||||||+.|+..+.|.                   ..+.+.+||++|++.+...++.+++.++++++|||+++++||+++
T Consensus        14 vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~   93 (166)
T d1ctqa_          14 VGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI   93 (166)
T ss_dssp             SSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTH
T ss_pred             CCHHHHHHHHHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHH
Confidence            7999999999988876                   678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC-CCceEEEEeC
Q psy16649         62 KNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      ..|++.+.+... +++|+++|||
T Consensus        94 ~~~~~~i~~~~~~~~~piilv~n  116 (166)
T d1ctqa_          94 HQYREQIKRVKDSDDVPMVLVGN  116 (166)
T ss_dssp             HHHHHHHHHHHTCSSCCEEEEEE
T ss_pred             HHHHHHHHHhcCCCCCeEEEEec
Confidence            999999988653 6799999997

>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=99.88  E-value=1.1e-23  Score=118.59  Aligned_cols=83  Identities=36%  Similarity=0.588  Sum_probs=65.7

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.++..+.|.                     ..+.+.+|||+|++++..++..+++.++++++|||++++.||+
T Consensus        13 vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~   92 (175)
T d1ky3a_          13 VGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFE   92 (175)
T ss_dssp             SSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHH
T ss_pred             cCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccc
Confidence            7999999999887775                     5578999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      .+..|++++.+..    +.++|++||||
T Consensus        93 ~~~~~~~~i~~~~~~~~~~~~piilv~n  120 (175)
T d1ky3a_          93 NIKSWRDEFLVHANVNSPETFPFVILGN  120 (175)
T ss_dssp             THHHHHHHHHHHHCCSCTTTCCEEEEEE
T ss_pred             hhhhcchhhhhhhhhcccccCcEEEEec
Confidence            9999999997743    35799999997

>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=99.88  E-value=1.9e-23  Score=118.01  Aligned_cols=83  Identities=40%  Similarity=0.775  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      +|||||+.++..+.|.                    ..+++.+|||+|+++++.+++.++++++++++|||++++++|+.
T Consensus        18 vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   97 (177)
T d1x3sa1          18 VGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVK   97 (177)
T ss_dssp             SSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCcccccc
Confidence            7999999999988875                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC-CCceEEEEeC
Q psy16649         61 IKNWIRNIEENAS-ANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~~-~~~piilvgN   83 (83)
                      +..|+.++.+... ...|+++++|
T Consensus        98 ~~~~~~~i~~~~~~~~~~i~~~~n  121 (177)
T d1x3sa1          98 LDNWLNELETYCTRNDIVNMLVGN  121 (177)
T ss_dssp             HHHHHHHHTTCCSCSCCEEEEEEE
T ss_pred             chhhhhhhcccccccceeeEEEee
Confidence            9999999987653 5788888886

>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=99.88  E-value=5e-23  Score=114.88  Aligned_cols=83  Identities=35%  Similarity=0.703  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhc-chhhhccCCcEEEEEEECCChhHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRT-ITTAYYRGAMGIMLVYDITNEKSFD   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~   59 (83)
                      +|||||+.|+..+.|.                    ....+.+||++|.+.+.. .++.|++++|++++|||+++++||+
T Consensus        13 vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~   92 (165)
T d1z06a1          13 VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFH   92 (165)
T ss_dssp             SSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHH
T ss_pred             cCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhh
Confidence            7999999999998876                    677899999999887754 5788999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         60 NIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        60 ~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ++..|+.++.++. .+++|++||||
T Consensus        93 ~~~~~~~~i~~~~~~~~~pi~lvgn  117 (165)
T d1z06a1          93 SLPAWIEECKQHLLANDIPRILVGN  117 (165)
T ss_dssp             THHHHHHHHHHHCCCSCCCEEEEEE
T ss_pred             hhhhhhHHHHhhccCCCCeEEEEec
Confidence            9999999998764 46899999997

>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=99.86  E-value=1.4e-22  Score=114.10  Aligned_cols=81  Identities=16%  Similarity=0.249  Sum_probs=68.5

Q ss_pred             CCcceeeeeeccCccc---------------------eEEEEEEEeC---CCchhhhcchhhhccCCcEEEEEEECCChh
Q psy16649          1 SGENLCTLQIFRGCFQ---------------------HNFHINYRDT---AGQERFRTITTAYYRGAMGIMLVYDITNEK   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------------~~~~l~i~Dt---~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~   56 (83)
                      +|||||+.++..+.+.                     +.+.+.+||+   +|+++|  ++..|+++++++|+|||+++++
T Consensus        14 vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~   91 (172)
T d2g3ya1          14 VGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRA   91 (172)
T ss_dssp             SSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEEETTCHH
T ss_pred             cCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeeecccccc
Confidence            6999999998765543                     5677788885   567776  6788999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhc-CCCceEEEEeC
Q psy16649         57 SFDNIKNWIRNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        57 s~~~~~~w~~~~~~~~-~~~~piilvgN   83 (83)
                      ||+++.+|..++.... .+++|++||||
T Consensus        92 s~~~~~~~~~~i~~~~~~~~~piilvgn  119 (172)
T d2g3ya1          92 SFEKASELRIQLRRARQTEDIPIILVGN  119 (172)
T ss_dssp             HHHHHHHHHHHHHTSGGGTTSCEEEEEE
T ss_pred             hhhhhhhhhhhhhhccccCCceEEEEec
Confidence            9999999999987643 47899999997

>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=99.86  E-value=1.2e-22  Score=113.42  Aligned_cols=83  Identities=29%  Similarity=0.478  Sum_probs=74.7

Q ss_pred             CCcceeeeeeccCccc----------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ----------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~----------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      +|||||+.++..+.+.                ..+.+++||++|++.+...+..++++++++++|||++++++|+++..|
T Consensus        13 ~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~   92 (164)
T d1zd9a1          13 SGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNE   92 (164)
T ss_dssp             SSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCcccccceeeeeeeeeeeEEEEEeeccccccccccccccccccchhhcccccccccccchhhhh
Confidence            7999999999988876                557899999999999999999999999999999999999999999988


Q ss_pred             HHHHHHh-cCCCceEEEEeC
Q psy16649         65 IRNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        65 ~~~~~~~-~~~~~piilvgN   83 (83)
                      +..+.+. ..+++|++||||
T Consensus        93 ~~~~~~~~~~~~~pi~lv~n  112 (164)
T d1zd9a1          93 LHNLLDKPQLQGIPVLVLGN  112 (164)
T ss_dssp             HHHHHTCGGGTTCCEEEEEE
T ss_pred             hhhhhhhhcccCCcEEEEEe
Confidence            8777553 347899999997

>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=99.86  E-value=3.9e-22  Score=112.22  Aligned_cols=83  Identities=31%  Similarity=0.579  Sum_probs=76.1

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.|+..+.|.                    ..+.+++||++|++++...++.+++.+++++++||++++.||+.
T Consensus        17 vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~   96 (174)
T d1wmsa_          17 VGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQN   96 (174)
T ss_dssp             SSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccch
Confidence            7999999999988876                    67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      +..|++++.+..    .+++|++||||
T Consensus        97 ~~~~~~~i~~~~~~~~~~~~piilVgn  123 (174)
T d1wmsa_          97 LSNWKKEFIYYADVKEPESFPFVILGN  123 (174)
T ss_dssp             HHHHHHHHHHHHTCSCTTTSCEEEEEE
T ss_pred             hhhHHHHHHHHhccccCCCceEEEecc
Confidence            999999987643    25799999997

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.86  E-value=8.3e-23  Score=115.85  Aligned_cols=83  Identities=16%  Similarity=0.143  Sum_probs=71.7

Q ss_pred             CCcceeeeeeccCccc-----------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHH----------
Q psy16649          1 SGENLCTLQIFRGCFQ-----------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD----------   59 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-----------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~----------   59 (83)
                      +||||++.||..+.|+           ..+++++||++||++|+.+++.|+++++++++|||+++.++|.          
T Consensus        13 vGKTsl~~r~~~~~~~t~~~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~   92 (195)
T d1svsa1          13 SGKSTIVKQMKIIHEAGTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMH   92 (195)
T ss_dssp             SSHHHHHHHHHHHHSCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHH
T ss_pred             CCHHHHHHHHhhCCCCCccEEEEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHH
Confidence            7999999999887776           5588999999999999999999999999999999999998873          


Q ss_pred             -HHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         60 -NIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        60 -~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                       ....|...+.......+|++++||
T Consensus        93 e~~~~~~~i~~~~~~~~~~~~lv~N  117 (195)
T d1svsa1          93 ESMKLFDSICNNKWFTDTSIILFLN  117 (195)
T ss_dssp             HHHHHHHHHHTCGGGTTSEEEEEEE
T ss_pred             HHHHHHHHHhcccccCCCCEEEEec
Confidence             345566666665567899999997

>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=99.85  E-value=5.4e-22  Score=111.51  Aligned_cols=83  Identities=19%  Similarity=0.337  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.|.               ..+.+++||++|+++++..++.+++.++++++|||++++.+|+++..|+
T Consensus        27 vGKSsLi~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~  106 (176)
T d1fzqa_          27 AGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQEL  106 (176)
T ss_dssp             SSHHHHHHHHCCSCCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCcceeeeeeeEEEeccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhh
Confidence            7999999999998886               3578999999999999999999999999999999999999999999888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... ..++|++||||
T Consensus       107 ~~~~~~~~~~~~pillv~n  125 (176)
T d1fzqa_         107 TELLEEEKLSCVPVLIFAN  125 (176)
T ss_dssp             HHHTTCGGGTTCCEEEEEE
T ss_pred             hhhhhhhccCCCeEEEEEE
Confidence            7775533 46899999997

>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=99.85  E-value=3.3e-22  Score=113.14  Aligned_cols=83  Identities=17%  Similarity=0.312  Sum_probs=70.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+++.+||++|+++++.+++.++++++++++|||++++.++.++..|+
T Consensus        28 vGKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l  107 (182)
T d1moza_          28 AGKTTILYRLQIGEVVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKEL  107 (182)
T ss_dssp             SSHHHHHHHTCCSEEEEECSSTTCCEEEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccccccceEEEEEeeCCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHH
Confidence            7999999999887776               6689999999999999999999999999999999999999999999887


Q ss_pred             HHHHHh-cCCCceEEEEeC
Q psy16649         66 RNIEEN-ASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~-~~~~~piilvgN   83 (83)
                      .+..+. ...++|++||||
T Consensus       108 ~~~~~~~~~~~~piliv~N  126 (182)
T d1moza_         108 HLMLQEEELQDAALLVFAN  126 (182)
T ss_dssp             HHHTTSSTTSSCEEEEEEE
T ss_pred             HHHHHhhccCCcceEEEEE
Confidence            766443 346899999998

>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=99.84  E-value=1.2e-21  Score=110.12  Aligned_cols=83  Identities=20%  Similarity=0.399  Sum_probs=74.3

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+.+.+||++|++.++..+..++++++++++|||+++++++.++..|+
T Consensus        23 vGKTSli~rl~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l  102 (173)
T d1e0sa_          23 AGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQEL  102 (173)
T ss_dssp             SSHHHHHHHTTCCCCEEEEEETTEEEEEEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCccceeeeeEEEeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHH
Confidence            7999999999988877               4579999999999999999999999999999999999999999998877


Q ss_pred             HHHHH-hcCCCceEEEEeC
Q psy16649         66 RNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~-~~~~~~piilvgN   83 (83)
                      ....+ ....+.|++++||
T Consensus       103 ~~~~~~~~~~~~piiiv~N  121 (173)
T d1e0sa_         103 HRIINDREMRDAIILIFAN  121 (173)
T ss_dssp             HHHHTSGGGTTCEEEEEEE
T ss_pred             HHHhhhcccccceeeeeee
Confidence            76654 3447899999997

>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=99.84  E-value=9.8e-22  Score=111.39  Aligned_cols=83  Identities=33%  Similarity=0.536  Sum_probs=75.9

Q ss_pred             CCcceeeeeeccCccc--------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~   60 (83)
                      ||||||+.++..+.|.                    ..+.+.+||++|++.+...++.+++.+++++++||.+++++|+.
T Consensus        13 vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~   92 (184)
T d1vg8a_          13 VGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKT   92 (184)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHT
T ss_pred             cCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhc
Confidence            7999999999988876                    56799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc----CCCceEEEEeC
Q psy16649         61 IKNWIRNIEENA----SANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~~~~~----~~~~piilvgN   83 (83)
                      ++.|++++....    ..++|++||||
T Consensus        93 ~~~~~~~i~~~~~~~~~~~ip~ilv~n  119 (184)
T d1vg8a_          93 LDSWRDEFLIQASPRDPENFPFVVLGN  119 (184)
T ss_dssp             HHHHHHHHHHHHCCSSGGGSCEEEEEE
T ss_pred             chhhHHHHHHHhccccccCCCEEEEEE
Confidence            999999987753    25789999997

>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=99.83  E-value=3.4e-21  Score=107.29  Aligned_cols=83  Identities=16%  Similarity=0.316  Sum_probs=72.0

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||||+.++..+.+.               +.+.+.+||++|+++++..++.+++.++++++|||++++.++.++..|+
T Consensus        13 ~GKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~   92 (165)
T d1ksha_          13 AGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQREL   92 (165)
T ss_dssp             SSHHHHHHHHTTCCCSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHcCCCCCcccceEeeeeeeccccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhh
Confidence            7999999999877665               5578999999999999999999999999999999999999999987665


Q ss_pred             HHHHH-hcCCCceEEEEeC
Q psy16649         66 RNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~-~~~~~~piilvgN   83 (83)
                      .+... ....++|+++|||
T Consensus        93 ~~~~~~~~~~~~p~iiv~n  111 (165)
T d1ksha_          93 QSLLVEERLAGATLLIFAN  111 (165)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             hhhhhhcccCCCceEEEEe
Confidence            55433 3347899999997

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=1.1e-19  Score=103.11  Aligned_cols=83  Identities=16%  Similarity=0.063  Sum_probs=74.0

Q ss_pred             CCcceeeeeeccCccc--------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChh----------
Q psy16649          1 SGENLCTLQIFRGCFQ--------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEK----------   56 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~----------   56 (83)
                      +|||||+.||..+.|.              ..+.+++||++|+++++..+..+++.+++++++||.++.+          
T Consensus        13 vGKTsll~r~~~~~~~~~pTiG~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   92 (200)
T d2bcjq2          13 SGKSTFIKQMRIIHGSGVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNEN   92 (200)
T ss_dssp             SSHHHHHHHHHHHTSSCCCCCSCEEEEEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSB
T ss_pred             CCHHHHHHHHhCCCCCCCceeeEEEEEEeccceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhcccc
Confidence            7999999999888886              4568999999999999999999999999999999998864          


Q ss_pred             -HHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         57 -SFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        57 -s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                       +++.++.|...+......++|++++||
T Consensus        93 ~~~e~~~~~~~~l~~~~~~~~~~~~v~N  120 (200)
T d2bcjq2          93 RMEESKALFRTIITYPWFQNSSVILFLN  120 (200)
T ss_dssp             HHHHHHHHHHHHHHCGGGSSSEEEEEEE
T ss_pred             chHHHHHHHHHHHhhhhccCccEEEecc
Confidence             567788899888877668999999997

>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=99.77  E-value=3.1e-19  Score=98.12  Aligned_cols=83  Identities=14%  Similarity=0.335  Sum_probs=74.5

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||||+.++..+.+.               ..+++.+||++|++.+...+..+++.+++++++||++++.++..+..|.
T Consensus        11 vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~   90 (160)
T d1r8sa_          11 AGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREEL   90 (160)
T ss_dssp             SSHHHHHHHHHHHCSSCCCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccccceeeEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHH
Confidence            7999999999988875               6789999999999999999999999999999999999999999999888


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      .++.... ...+|++++||
T Consensus        91 ~~~~~~~~~~~~~i~~v~~  109 (160)
T d1r8sa_          91 MRMLAEDELRDAVLLVFAN  109 (160)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             HHHHHhhcccCceEEEEee
Confidence            7776543 36789999986

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.70  E-value=5.9e-18  Score=98.35  Aligned_cols=83  Identities=13%  Similarity=0.101  Sum_probs=66.8

Q ss_pred             CCcceeeeeeccCccc------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH-----------
Q psy16649          1 SGENLCTLQIFRGCFQ------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS-----------   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s-----------   57 (83)
                      +|||||+.|+..+.+.            +.+++++||++||++++..|..++++++++++++|+++.+.           
T Consensus        17 vGKTsll~~~~~~~~~pTiG~~~~~~~~~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~   96 (221)
T d1azta2          17 SGKSTIVKQMRILHVVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRL   96 (221)
T ss_dssp             SSHHHHHHHHHHHHCCCCCSCEEEEEEETTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHH
T ss_pred             CCHHHHHHHHhcCCcCCCCCeEEEEEEECcEEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccchHHH
Confidence            7999999999877665            56899999999999999999999999999999999987532           


Q ss_pred             HHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         58 FDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        58 ~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+..|...+......++|++|+||
T Consensus        97 ~e~~~~~~~il~~~~~~~~~iil~~N  122 (221)
T d1azta2          97 QEALNLFKSIWNNRWLRTISVILFLN  122 (221)
T ss_dssp             HHHHHHHHHHHTCGGGSSCEEEEEEE
T ss_pred             HHHHHHHHHHhcChhhCCCcEEEEec
Confidence            23333444444444447899999998

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.65  E-value=3.6e-17  Score=92.85  Aligned_cols=83  Identities=19%  Similarity=0.151  Sum_probs=57.5

Q ss_pred             CCcceeeeeeccCccc-------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhH----------
Q psy16649          1 SGENLCTLQIFRGCFQ-------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKS----------   57 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s----------   57 (83)
                      +|||||+.|+......             +.+++++||++|++.++..+..+++++++++++||.++..+          
T Consensus        13 vGKTsll~r~~f~~~~~pTiG~~~~~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (200)
T d1zcba2          13 SGKSTFLKQMRIIHGQDPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNR   92 (200)
T ss_dssp             SSHHHHHHHHHHHHSCCCCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEH
T ss_pred             CCHHHHHHHHhcCCCCCCeeeeEEEEEeeeeeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchh
Confidence            7999999998322111             55689999999999999999999999999999999998644          


Q ss_pred             HHHHHHHHHHHHH-hcCCCceEEEEeC
Q psy16649         58 FDNIKNWIRNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        58 ~~~~~~w~~~~~~-~~~~~~piilvgN   83 (83)
                      +++...|++.+.+ ....++|++|+||
T Consensus        93 ~~~~~~~~~~i~~~~~~~~~piilv~N  119 (200)
T d1zcba2          93 LTESLNIFETIVNNRVFSNVSIILFLN  119 (200)
T ss_dssp             HHHHHHHHHHHHTCGGGTTSEEEEEEE
T ss_pred             hhHHHHHHHHHhhChhhcCceEEEEec
Confidence            3444444444433 3347899999998

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=3.2e-16  Score=89.70  Aligned_cols=83  Identities=14%  Similarity=0.316  Sum_probs=65.7

Q ss_pred             CCcceeeeeeccCccc------------------eEEEEEEEeCCCchhhh-cchhhhccCCcEEEEEEECCChhHH-HH
Q psy16649          1 SGENLCTLQIFRGCFQ------------------HNFHINYRDTAGQERFR-TITTAYYRGAMGIMLVYDITNEKSF-DN   60 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~------------------~~~~l~i~Dt~g~~~~~-~~~~~~~~~~~~~ilv~d~~~~~s~-~~   60 (83)
                      +|||||+.++..+.+.                  ..+.+.+||++|+++++ ..+..+++.++++++|+|.++..++ .+
T Consensus        11 ~GKTsLl~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~   90 (207)
T d2fh5b1          11 SGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKD   90 (207)
T ss_dssp             SSHHHHHHHHHHSCCCCBCCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCcccCCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHH
Confidence            7999999999887765                  45779999999999986 5778899999999999999998774 45


Q ss_pred             HHHHHHHH-HHh--cCCCceEEEEeC
Q psy16649         61 IKNWIRNI-EEN--ASANVEKMLLGN   83 (83)
Q Consensus        61 ~~~w~~~~-~~~--~~~~~piilvgN   83 (83)
                      ...|+.++ ...  ....+|++||+|
T Consensus        91 ~~~~l~~~l~~~~~~~~~~pilvv~N  116 (207)
T d2fh5b1          91 VAEFLYQVLIDSMALKNSPSLLIACN  116 (207)
T ss_dssp             HHHHHHHHHHHHHTSTTCCEEEEEEE
T ss_pred             HHHHHHHHHHhHHHhhcCCcEEEEEE
Confidence            55554444 322  236799999997

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.58  E-value=1.6e-15  Score=84.47  Aligned_cols=83  Identities=17%  Similarity=0.233  Sum_probs=68.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||||+.|+..+.+.               ..+.+.+||++|++..+..+..+++.++++++++|.++.++++....+.
T Consensus        26 ~GKSsLi~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~  105 (177)
T d1zj6a1          26 AGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREEL  105 (177)
T ss_dssp             SSHHHHHHHHHTTSCEEEECCSCSSCEEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHH
T ss_pred             CCHHHHHHHHhcCCCCccccccceeEEEEeecceEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhh
Confidence            7999999999988766               5588999999999999999999999999999999999999999987766


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      ....... ....|++||||
T Consensus       106 ~~~~~~~~~~~~p~iiv~n  124 (177)
T d1zj6a1         106 YKMLAHEDLRKAGLLIFAN  124 (177)
T ss_dssp             HHHHTSGGGTTCEEEEEEE
T ss_pred             hhhhhcccccceEEEEEEE
Confidence            5554432 36899999987

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.52  E-value=1e-14  Score=79.67  Aligned_cols=83  Identities=19%  Similarity=0.295  Sum_probs=71.8

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      +|||||+.++..+.+.               ..+...+||+.|...+...++.+++.++++++++|.+++.++.....|.
T Consensus        11 vGKSSLln~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~   90 (166)
T d2qtvb1          11 AGKTTLLHMLKNDRLATLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVEL   90 (166)
T ss_dssp             SSHHHHHHHHHHSCCCCCCCCCSCEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhCCCCCeeeceeeEeEEEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHH
Confidence            7999999999988765               4567889999999999999999999999999999999999999998877


Q ss_pred             HHHHHhc-CCCceEEEEeC
Q psy16649         66 RNIEENA-SANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~-~~~~piilvgN   83 (83)
                      ....... ..+.|+++++|
T Consensus        91 ~~~~~~~~~~~~~i~i~~~  109 (166)
T d2qtvb1          91 DALFNIAELKDVPFVILGN  109 (166)
T ss_dssp             HHHHTCTTTTTCCEEEEEE
T ss_pred             HhhhhhhccCCceEEEEec
Confidence            7765533 36788888875

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.51  E-value=1.3e-14  Score=81.28  Aligned_cols=81  Identities=15%  Similarity=0.169  Sum_probs=57.4

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh--------hcchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF--------RTITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~--------~~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++......                   ....+.+|||+|....        ......++++||++++|+|.+
T Consensus        16 ~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~   95 (178)
T d1wf3a1          16 VGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLR   95 (178)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccccccchhcccccccccccccceeeeechh
Confidence            6999999888754321                   3367899999997433        333445678999999999998


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+... +.|.+.+++.. .+.|+++|+|
T Consensus        96 ~~~~~~~-~~i~~~l~~~~-~~~piilv~N  123 (178)
T d1wf3a1          96 HPPTPED-ELVARALKPLV-GKVPILLVGN  123 (178)
T ss_dssp             SCCCHHH-HHHHHHHGGGT-TTSCEEEEEE
T ss_pred             hhhcccc-cchhhheeccc-cchhhhhhhc
Confidence            8655332 44555555443 6789999987

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.44  E-value=1e-13  Score=76.06  Aligned_cols=83  Identities=17%  Similarity=0.250  Sum_probs=71.1

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||||+.++..+.|.               ..+.+.+||.+|.+.+......++..++++++++|+++..++.....+.
T Consensus        16 vGKSSLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (169)
T d1upta_          16 AGKTTILYRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSEL   95 (169)
T ss_dssp             SSHHHHHHHHHHSSCCCCCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHH
T ss_pred             CCHHHHHHHHhCCCCcceecccceeeeeeccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchh
Confidence            7999999999988877               5688999999999999999999999999999999999999999887654


Q ss_pred             HHH-HHhcCCCceEEEEeC
Q psy16649         66 RNI-EENASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~-~~~~~~~~piilvgN   83 (83)
                      ... ........|+++++|
T Consensus        96 ~~~~~~~~~~~~~i~iv~n  114 (169)
T d1upta_          96 VAMLEEEELRKAILVVFAN  114 (169)
T ss_dssp             HHHHTCGGGTTCEEEEEEE
T ss_pred             hhhhhhhccccceEEEEEe
Confidence            444 333446788888886

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.39  E-value=7.5e-14  Score=79.32  Aligned_cols=83  Identities=16%  Similarity=0.300  Sum_probs=61.6

Q ss_pred             CCcceeeeeeccCccc--------------eEEEEEEEeCCCchhhhcchhhhcc----CCcEEEEEEECC-ChhHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ--------------HNFHINYRDTAGQERFRTITTAYYR----GAMGIMLVYDIT-NEKSFDNI   61 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------~~~~l~i~Dt~g~~~~~~~~~~~~~----~~~~~ilv~d~~-~~~s~~~~   61 (83)
                      +|||||+.++..+.+.              ....+.+||++|+++++..+..++.    .++.+++++|.. +..+++..
T Consensus        14 ~GKTSLln~l~~~~~~~~tt~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~   93 (209)
T d1nrjb_          14 SGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTT   93 (209)
T ss_dssp             SSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHH
T ss_pred             CCHHHHHHHHhCCCCCCeEEecceEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEecccccHHHH
Confidence            7999999999866544              4556789999999988776665554    457788888765 56777777


Q ss_pred             HHHHHHH----HHhcCCCceEEEEeC
Q psy16649         62 KNWIRNI----EENASANVEKMLLGN   83 (83)
Q Consensus        62 ~~w~~~~----~~~~~~~~piilvgN   83 (83)
                      ..|+.++    ......++|+++|+|
T Consensus        94 ~~~l~~~~~~~~~~~~~~~piiiv~N  119 (209)
T d1nrjb_          94 AEFLVDILSITESSCENGIDILIACN  119 (209)
T ss_dssp             HHHHHHHHHHHHHHSTTCCCEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhccCCeEEEEE
Confidence            7665544    334457899999987

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.36  E-value=5.5e-13  Score=74.00  Aligned_cols=83  Identities=18%  Similarity=0.262  Sum_probs=63.8

Q ss_pred             CCcceeeeeeccCccc---------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHH
Q psy16649          1 SGENLCTLQIFRGCFQ---------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWI   65 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~---------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~   65 (83)
                      ||||||+.++..+.+.               .......||+.++..+...+..+++..+++++++|++++.++.....+.
T Consensus        24 vGKTsLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~  103 (186)
T d1f6ba_          24 AGKTTLLHMLKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEEL  103 (186)
T ss_dssp             SSHHHHHHHHSCC------CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             CCHHHHHHHHhCCCCcceecccccceeEEEecccccccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHH
Confidence            7999999999888764               3466789999999999999999999999999999999999999887654


Q ss_pred             HHHHH-hcCCCceEEEEeC
Q psy16649         66 RNIEE-NASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~-~~~~~~piilvgN   83 (83)
                      ..... ....+.|+++++|
T Consensus       104 ~~~~~~~~~~~~~~li~~~  122 (186)
T d1f6ba_         104 DSLMTDETIANVPILILGN  122 (186)
T ss_dssp             HHHHTCGGGTTSCEEEEEE
T ss_pred             HHhhcccccCCCceEEEEe
Confidence            44433 3346899999886

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.28  E-value=8.3e-13  Score=72.38  Aligned_cols=82  Identities=16%  Similarity=0.132  Sum_probs=62.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhh--------cchhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFR--------TITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~--------~~~~~~~~~~~~~ilv~d~~   53 (83)
                      +|||||+.++......                   ....+.+||++|.....        .....+++.++.+++++|.+
T Consensus        12 vGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~   91 (161)
T d2gj8a1          12 AGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGT   91 (161)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETT
T ss_pred             CCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccc
Confidence            7999999887644322                   44678889999854332        22446678999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..+++..+.|.+.+.... ...|+++|+|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~-~~~~iilv~N  120 (161)
T d2gj8a1          92 TTDAVDPAEIWPEFIARLP-AKLPITVVRN  120 (161)
T ss_dssp             TCCCCSHHHHCHHHHHHSC-TTCCEEEEEE
T ss_pred             cccchhhhhhhhhhhhhcc-cccceeeccc
Confidence            9999888888876666554 6789999987

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.04  E-value=6e-11  Score=66.06  Aligned_cols=82  Identities=11%  Similarity=0.100  Sum_probs=51.1

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh----h---cchhhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF----R---TITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~----~---~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      +|||||+.++......                   ....+++|||+|..+.    .   ......+..++.+++++|...
T Consensus        12 vGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~   91 (180)
T d1udxa2          12 AGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAAD   91 (180)
T ss_dssp             GCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTS
T ss_pred             CCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            6999999887643322                   3456889999994321    1   122345678999999999865


Q ss_pred             h--hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         55 E--KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        55 ~--~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .  ++++....|+....... .+.|+++|+|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~-~~~p~iiv~N  121 (180)
T d1udxa2          92 EPLKTLETLRKEVGAYDPAL-LRRPSLVALN  121 (180)
T ss_dssp             CHHHHHHHHHHHHHHHCHHH-HHSCEEEEEE
T ss_pred             ccccchhhhhhhhhcccccc-chhhhhhhhh
Confidence            3  23333344443332222 3578888886

>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=98.96  E-value=1.3e-10  Score=67.25  Aligned_cols=62  Identities=18%  Similarity=0.101  Sum_probs=44.5

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...+.+.||+|++.|...+...+..+|++|+|.|..+.-.-+. +..+..+..   .+.|++++.|
T Consensus        69 ~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlN  130 (227)
T d1g7sa4          69 LPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAAN  130 (227)
T ss_dssp             CCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEE
T ss_pred             ccccccccccceecccccchhcccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEE
Confidence            3578899999999998888888899999999999876422222 222233332   3578888876

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.89  E-value=1.5e-09  Score=59.76  Aligned_cols=79  Identities=15%  Similarity=0.151  Sum_probs=51.8

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh---------hhcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER---------FRTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~---------~~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++......                   ....+.+||++|...         +......++..+|.++++.|.
T Consensus        11 ~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~   90 (171)
T d1mkya1          11 VGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDG   90 (171)
T ss_dssp             SSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEET
T ss_pred             CCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccCcEEEEeecc
Confidence            7999999998654332                   346788999998422         222334556789999999998


Q ss_pred             CChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         53 TNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        53 ~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++....+ ...|.+.++..   +.|+++|+|
T Consensus        91 ~~~~~~~-~~~~~~~l~~~---~~pviiv~N  117 (171)
T d1mkya1          91 KRGITKE-DESLADFLRKS---TVDTILVAN  117 (171)
T ss_dssp             TTCCCHH-HHHHHHHHHHH---TCCEEEEEE
T ss_pred             ccccccc-ccccccccccc---cccccccch
Confidence            7654443 24455555543   468889887

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.86  E-value=1.1e-09  Score=60.60  Aligned_cols=80  Identities=11%  Similarity=0.056  Sum_probs=48.9

Q ss_pred             CCcceeeeeeccCccc--------------eEEEEEEEeCCCc-----------hh----hhcchhhhccCCcEEEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ--------------HNFHINYRDTAGQ-----------ER----FRTITTAYYRGAMGIMLVYD   51 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~--------------~~~~l~i~Dt~g~-----------~~----~~~~~~~~~~~~~~~ilv~d   51 (83)
                      +|||||+.++......              ..-.++++||+|.           ++    +........+.+|+++++.|
T Consensus        11 vGKSsLin~l~~~~~~~~~~~g~T~~~~~~~~~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD   90 (184)
T d2cxxa1          11 VGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVD   90 (184)
T ss_dssp             SSHHHHHHHHHSCCCSSSSSTTCTTSCEEEEETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEE
T ss_pred             CCHHHHHHHHhCCCceeeCCCCEeecccccccccceecccCCceeccccccccccccchhhhhhhhhcccccchheeeee
Confidence            6999999887643221              2224578999994           11    12233455678999999999


Q ss_pred             CCChhHHHHHHH----------HHHHHHHhcCCCceEEEEeC
Q psy16649         52 ITNEKSFDNIKN----------WIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        52 ~~~~~s~~~~~~----------w~~~~~~~~~~~~piilvgN   83 (83)
                      .+.+........          ..+.+.   ..+.|+++|+|
T Consensus        91 ~~~~~~~~~~~~~~~~~~~d~~~~~~l~---~~~~p~iiv~N  129 (184)
T d2cxxa1          91 GKAAPEIIKRWEKRGEIPIDVEFYQFLR---ELDIPTIVAVN  129 (184)
T ss_dssp             TTHHHHHHHHHHHTTCCCHHHHHHHHHH---HTTCCEEEEEE
T ss_pred             ccccchhhhhhhhccccHHHHHHHHHHH---HcCCCEEEEEe
Confidence            876544333211          122222   24688898886

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=98.85  E-value=1.1e-09  Score=61.05  Aligned_cols=79  Identities=10%  Similarity=0.074  Sum_probs=56.4

Q ss_pred             CCcceeeeeeccCccc-------------------------eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------------HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------------~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      +|||||+.++....-.                         ....+.++|++|+.+|.......+..+|++++++|.++.
T Consensus        16 aGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g   95 (179)
T d1wb1a4          16 HGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEG   95 (179)
T ss_dssp             SSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTC
T ss_pred             CcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhccccccccccccc
Confidence            6999999988631100                         446788999999999999889999999999999999875


Q ss_pred             hHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         56 KSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        56 ~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ...+..+.| ..+..   .++|+++|.|
T Consensus        96 ~~~~~~~~~-~~~~~---~~~p~iiv~N  119 (179)
T d1wb1a4          96 PKTQTGEHM-LILDH---FNIPIIVVIT  119 (179)
T ss_dssp             SCHHHHHHH-HHHHH---TTCCBCEEEE
T ss_pred             cchhhhhhh-hhhhh---cCCcceeccc
Confidence            443332222 22222   3567777766

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.81  E-value=6.5e-10  Score=60.47  Aligned_cols=62  Identities=16%  Similarity=0.115  Sum_probs=42.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchh--------hh-cchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQER--------FR-TITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~--------~~-~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++......                   ....+.+|||+|...        +. ......++.+|++++|+|.
T Consensus        11 ~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~   90 (160)
T d1xzpa2          11 VGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDA   90 (160)
T ss_dssp             HHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEET
T ss_pred             CCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeC
Confidence            5999999987543211                   557889999999421        10 1122236789999999999


Q ss_pred             CChhHHHHHH
Q psy16649         53 TNEKSFDNIK   62 (83)
Q Consensus        53 ~~~~s~~~~~   62 (83)
                      +++.+.+...
T Consensus        91 ~~~~~~~~~~  100 (160)
T d1xzpa2          91 SSPLDEEDRK  100 (160)
T ss_dssp             TSCCCHHHHH
T ss_pred             CCCcchhhhh
Confidence            9987765443

>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=98.64  E-value=2e-08  Score=57.13  Aligned_cols=48  Identities=13%  Similarity=0.063  Sum_probs=39.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHH
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNW   64 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w   64 (83)
                      ...++.+.||+|+++|......-.+.+|++|+|.|..+--.-+..+.|
T Consensus        65 ~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~  112 (204)
T d2c78a3          65 AKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHI  112 (204)
T ss_dssp             SSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH
T ss_pred             CCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH
Confidence            456889999999999988878888999999999999876555444444

>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=98.59  E-value=2.5e-08  Score=58.98  Aligned_cols=63  Identities=11%  Similarity=0.168  Sum_probs=47.0

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..++++.||+|+.+|......-++-+|++|+|.|..+--.-+..+.|. .+.+   .++|.+++-|
T Consensus        65 ~~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~-~~~~---~~~p~~i~iN  127 (267)
T d2dy1a2          65 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWT-VAER---LGLPRMVVVT  127 (267)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEE
T ss_pred             cccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHHH-hhhh---cccccccccc
Confidence            4567999999999999988888999999999999998765544444453 3332   3566666654

>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=98.55  E-value=1.2e-07  Score=53.15  Aligned_cols=39  Identities=21%  Similarity=0.183  Sum_probs=33.9

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ...++.+.||+|++.|......-...+|+++++.|..+.
T Consensus        76 ~~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g  114 (195)
T d1kk1a3          76 FVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEP  114 (195)
T ss_dssp             EEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSC
T ss_pred             CceeEeeeccchhhhhhHHhhcccccccccccccchhhh
Confidence            346789999999999988888888899999999998875

>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=98.51  E-value=1.4e-07  Score=53.35  Aligned_cols=37  Identities=19%  Similarity=0.173  Sum_probs=32.4

Q ss_pred             EEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         19 FHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      .++.+.|++|++.|......-...+|.+|+|.|..+.
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~g  122 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEP  122 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSC
T ss_pred             EEEEEeccchHHHHHhhhhcceecccccccccccccc
Confidence            4789999999999987777778899999999998764

>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=98.40  E-value=7.2e-08  Score=57.23  Aligned_cols=63  Identities=21%  Similarity=0.313  Sum_probs=47.9

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +..++++.||+|+..|..-...-++-+|++|+|.|..+--.-+-.+-|. ..+   ..++|.+++-|
T Consensus        69 ~~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~-~a~---~~~lP~i~fIN  131 (276)
T d2bv3a2          69 KDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWR-QAE---KYKVPRIAFAN  131 (276)
T ss_dssp             TTEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHH-HHH---TTTCCEEEEEE
T ss_pred             CCeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHH-HHH---HcCCCEEEEEe
Confidence            5678999999999999988888899999999999998764444444452 222   24678777655

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.36  E-value=9.4e-08  Score=52.82  Aligned_cols=79  Identities=16%  Similarity=0.087  Sum_probs=48.7

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc------------chhhhccCCcEEEEE
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT------------ITTAYYRGAMGIMLV   49 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~------------~~~~~~~~~~~~ilv   49 (83)
                      +|||||+.++......                   ....+.++|++|......            ......+.+|+++++
T Consensus        19 ~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v   98 (186)
T d1mkya2          19 VGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIV   98 (186)
T ss_dssp             SSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEE
T ss_pred             CCHHHHHHHHHCCCcceeecccccccccceeeeccCCceeeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEe
Confidence            6999999887643311                   335667889998754332            233456789999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         50 YDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        50 ~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +|...... .....+...+..   .+.|+++|+|
T Consensus        99 ~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~n  128 (186)
T d1mkya2          99 LDATQGIT-RQDQRMAGLMER---RGRASVVVFN  128 (186)
T ss_dssp             EETTTCCC-HHHHHHHHHHHH---TTCEEEEEEE
T ss_pred             ecccccch-hhHHHHHHHHHH---cCCceeeecc
Confidence            99976533 222344444433   3578888876

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.31  E-value=4.7e-08  Score=54.16  Aligned_cols=83  Identities=11%  Similarity=0.052  Sum_probs=46.2

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhhhc----ch---hhhccCCcEEEEEEECCC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERFRT----IT---TAYYRGAMGIMLVYDITN   54 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~~~----~~---~~~~~~~~~~ilv~d~~~   54 (83)
                      +|||||+.++......                   ....+.+|||+|..+...    +.   -..+..++.++.+.+...
T Consensus        12 vGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~   91 (185)
T d1lnza2          12 VGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSG   91 (185)
T ss_dssp             SSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSC
T ss_pred             CCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecc
Confidence            6999999987542211                   123578999999643221    11   123456788888877665


Q ss_pred             hhHHHHHHHH--HHHHHHhc---CCCceEEEEeC
Q psy16649         55 EKSFDNIKNW--IRNIEENA---SANVEKMLLGN   83 (83)
Q Consensus        55 ~~s~~~~~~w--~~~~~~~~---~~~~piilvgN   83 (83)
                      .+.......+  ........   ..+.|+++|+|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~N  125 (185)
T d1lnza2          92 LEGRDPYDDYLTINQELSEYNLRLTERPQIIVAN  125 (185)
T ss_dssp             SSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEE
T ss_pred             cccchhhhhhhhhhhccchhhhhccCCcchhhcc
Confidence            5443332222  11111111   13578888876

>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=98.30  E-value=3e-07  Score=51.96  Aligned_cols=39  Identities=15%  Similarity=0.112  Sum_probs=33.5

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ....+.+.||+|++.|......-.+.+|++++|.|..+-
T Consensus        64 ~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G  102 (196)
T d1d2ea3          64 AARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDG  102 (196)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTC
T ss_pred             ceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCC
Confidence            345788999999999988777778999999999999864

>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=98.06  E-value=5.5e-06  Score=47.44  Aligned_cols=38  Identities=13%  Similarity=0.093  Sum_probs=33.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ..++.+.|++|++.|......-...+|++++|.|...-
T Consensus        88 ~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G  125 (222)
T d1zunb3          88 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYG  125 (222)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTC
T ss_pred             ceEEEEEeccchhhhhhhhccccccCceEEEEeccccC
Confidence            35789999999999988877788999999999998764

>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=98.03  E-value=9e-06  Score=49.33  Aligned_cols=63  Identities=21%  Similarity=0.277  Sum_probs=48.1

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+++.||+|+.+|......-++-+|++++|.|..+--..+..+-|.....    .++|++++-|
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viN  156 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVIN  156 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEE
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEE
Confidence            35679999999999998888888899999999999988655555444533322    4677777765

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=98.00  E-value=2.2e-06  Score=47.59  Aligned_cols=42  Identities=5%  Similarity=0.108  Sum_probs=26.1

Q ss_pred             hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         38 AYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        38 ~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ..+..+++++++.|.++.-. ..-..+++.++.   .+.|+++|+|
T Consensus       101 ~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~---~~~piivv~N  142 (195)
T d1svia_         101 TTREELKAVVQIVDLRHAPS-NDDVQMYEFLKY---YGIPVIVIAT  142 (195)
T ss_dssp             HHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEE
T ss_pred             ccccchhhhhhhhhcccccc-cccccccccccc---ccCcceechh
Confidence            44457899999999875432 112334444443   3578898886

>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=97.95  E-value=9.2e-07  Score=50.63  Aligned_cols=39  Identities=15%  Similarity=0.175  Sum_probs=34.8

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCCh
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNE   55 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~   55 (83)
                      ....+.+.||+|++.|......-.+-+|++|+|.|..+-
T Consensus        79 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G  117 (224)
T d1jnya3          79 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKG  117 (224)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTT
T ss_pred             CCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccC
Confidence            346889999999999999888889999999999999863

>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=97.89  E-value=8.3e-06  Score=50.28  Aligned_cols=77  Identities=10%  Similarity=0.054  Sum_probs=44.0

Q ss_pred             CCcceeeeeeccCcc------c----------eE------EEEEEEeCCCchhhhc-----chhhhccCCcEEEEEEECC
Q psy16649          1 SGENLCTLQIFRGCF------Q----------HN------FHINYRDTAGQERFRT-----ITTAYYRGAMGIMLVYDIT   53 (83)
Q Consensus         1 ~GKss~~~~~~~~~~------~----------~~------~~l~i~Dt~g~~~~~~-----~~~~~~~~~~~~ilv~d~~   53 (83)
                      +||||+++.+.....      .          ..      -.+.+|||+|-.....     +...-...+|.++++.|..
T Consensus        67 ~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~  146 (400)
T d1tq4a_          67 SGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATR  146 (400)
T ss_dssp             SSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSC
T ss_pred             CCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCCCeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCC
Confidence            699999988753111      0          11      1367999999654332     2233355788888876643


Q ss_pred             ChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         54 NEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        54 ~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      -.+.  + ....+.+++   .+.|+++|.|
T Consensus       147 ~~~~--d-~~l~~~l~~---~~k~~~~V~n  170 (400)
T d1tq4a_         147 FKKN--D-IDIAKAISM---MKKEFYFVRT  170 (400)
T ss_dssp             CCHH--H-HHHHHHHHH---TTCEEEEEEC
T ss_pred             CCHH--H-HHHHHHHHH---cCCCEEEEEe
Confidence            2221  1 233444443   3578888876

>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=97.87  E-value=4.6e-06  Score=48.26  Aligned_cols=38  Identities=13%  Similarity=0.100  Sum_probs=34.2

Q ss_pred             eEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         17 HNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ...++.|.||+|+..|......-...+|++|+|.|...
T Consensus        82 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~  119 (239)
T d1f60a3          82 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGV  119 (239)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSH
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCC
Confidence            55789999999999998888888999999999999874

>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=97.78  E-value=7.8e-06  Score=47.59  Aligned_cols=55  Identities=16%  Similarity=0.109  Sum_probs=34.4

Q ss_pred             CCcceeeeeeccCc-cc------------------eEEEEEEEeCCCchhhh-------cchh--hhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGC-FQ------------------HNFHINYRDTAGQERFR-------TITT--AYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~-~~------------------~~~~l~i~Dt~g~~~~~-------~~~~--~~~~~~~~~ilv~d~   52 (83)
                      +||||+++.+.... |.                  ....+.++||+|-....       ....  ......+++++|.++
T Consensus        43 ~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~  122 (257)
T d1h65a_          43 VGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRL  122 (257)
T ss_dssp             SSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEES
T ss_pred             CcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence            69999998876432 22                  33578999999953211       1111  122457888888887


Q ss_pred             CCh
Q psy16649         53 TNE   55 (83)
Q Consensus        53 ~~~   55 (83)
                      +..
T Consensus       123 ~~~  125 (257)
T d1h65a_         123 DAY  125 (257)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            654

>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=97.35  E-value=2.6e-05  Score=45.12  Aligned_cols=37  Identities=16%  Similarity=0.041  Sum_probs=23.3

Q ss_pred             EEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCC
Q psy16649         18 NFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        18 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ..++.+.||+|+..|......-...+|++++|.|...
T Consensus       101 ~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~  137 (245)
T d1r5ba3         101 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARR  137 (245)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECST
T ss_pred             cceeeeecccccccchhhhhhhhhhhcceeeEEEcCC
Confidence            3578999999999998888888899999999999976

>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=97.35  E-value=4.8e-05  Score=41.17  Aligned_cols=55  Identities=13%  Similarity=0.105  Sum_probs=32.3

Q ss_pred             CCcceeeeeeccCccc-------------------eEEEEEEEeCCCchhh---------hcchhhhccCCcEEEEEEEC
Q psy16649          1 SGENLCTLQIFRGCFQ-------------------HNFHINYRDTAGQERF---------RTITTAYYRGAMGIMLVYDI   52 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~-------------------~~~~l~i~Dt~g~~~~---------~~~~~~~~~~~~~~ilv~d~   52 (83)
                      +|||||+.++......                   ....+..+|++|....         ..........++.++++.|.
T Consensus        16 vGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~   95 (179)
T d1egaa1          16 VGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEG   95 (179)
T ss_dssp             SSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEET
T ss_pred             CCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCceeEeecCCCceecchhhhhhhhhhccccchhhcceeEEEEec
Confidence            6999999998653221                   2345556888774322         11222233456777777776


Q ss_pred             CCh
Q psy16649         53 TNE   55 (83)
Q Consensus        53 ~~~   55 (83)
                      ++.
T Consensus        96 ~~~   98 (179)
T d1egaa1          96 TRW   98 (179)
T ss_dssp             TCC
T ss_pred             Ccc
Confidence            653

>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=95.98  E-value=0.0032  Score=36.60  Aligned_cols=50  Identities=8%  Similarity=0.205  Sum_probs=30.8

Q ss_pred             EEEEEeCCCchh-------------hhcchhhhccCCcEEE-EEEECCChhHHHHHHHHHHHHH
Q psy16649         20 HINYRDTAGQER-------------FRTITTAYYRGAMGIM-LVYDITNEKSFDNIKNWIRNIE   69 (83)
Q Consensus        20 ~l~i~Dt~g~~~-------------~~~~~~~~~~~~~~~i-lv~d~~~~~s~~~~~~w~~~~~   69 (83)
                      .+.+.|++|-..             ...+...|....+.++ ++.+.+..-+-..+..+.+++.
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~  189 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD  189 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhC
Confidence            477899999532             2345677888887665 4555555544455556665554

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.92  E-value=0.0027  Score=37.37  Aligned_cols=36  Identities=25%  Similarity=0.220  Sum_probs=21.3

Q ss_pred             EEEEEEeCCCchhh----hcchh---hhccCCcEEEEEEECCC
Q psy16649         19 FHINYRDTAGQERF----RTITT---AYYRGAMGIMLVYDITN   54 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~----~~~~~---~~~~~~~~~ilv~d~~~   54 (83)
                      ..++++|++|--..    ..+..   ...+.+|+++.|.|..+
T Consensus        71 ~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTC
T ss_pred             ccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            56999999984221    11222   34568999999999864

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=94.87  E-value=0.0081  Score=31.87  Aligned_cols=15  Identities=7%  Similarity=-0.037  Sum_probs=11.3

Q ss_pred             CCcceeeeeeccCcc
Q psy16649          1 SGENLCTLQIFRGCF   15 (83)
Q Consensus         1 ~GKss~~~~~~~~~~   15 (83)
                      +|||||++++.....
T Consensus        27 vGKSSL~n~L~~~~~   41 (188)
T d1puia_          27 AGKSSALNTLTNQKS   41 (188)
T ss_dssp             SSHHHHHTTTCCC--
T ss_pred             CCHHHHHHHHhCCCc
Confidence            699999999876543

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=94.86  E-value=0.008  Score=34.77  Aligned_cols=35  Identities=20%  Similarity=0.121  Sum_probs=24.1

Q ss_pred             EEEEEEeCCCc----hhhhcch---hhhccCCcEEEEEEECC
Q psy16649         19 FHINYRDTAGQ----ERFRTIT---TAYYRGAMGIMLVYDIT   53 (83)
Q Consensus        19 ~~l~i~Dt~g~----~~~~~~~---~~~~~~~~~~ilv~d~~   53 (83)
                      ..+++.|.+|-    ..-..+.   -...+.+|+++.|.|..
T Consensus        66 a~i~~~Di~GLi~ga~~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          66 TTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             CEEEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             eeEEEEEccccCCCcccCCCccHHHHHHHHhccceEEEeecc
Confidence            36889999984    2222233   34567899999999763

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=94.16  E-value=0.033  Score=32.39  Aligned_cols=36  Identities=17%  Similarity=0.022  Sum_probs=25.1

Q ss_pred             EEEEEEeCCCchhh----hc---chhhhccCCcEEEEEEECCC
Q psy16649         19 FHINYRDTAGQERF----RT---ITTAYYRGAMGIMLVYDITN   54 (83)
Q Consensus        19 ~~l~i~Dt~g~~~~----~~---~~~~~~~~~~~~ilv~d~~~   54 (83)
                      ..+++.|.+|--.-    ..   -.-...+.+|+++.|.|..+
T Consensus        75 ~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          75 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccceeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            46889999974321    11   23445679999999998866

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=85.17  E-value=0.6  Score=26.69  Aligned_cols=33  Identities=18%  Similarity=0.380  Sum_probs=24.1

Q ss_pred             EEEEEEeCCCchh-------------hhcchhhhccCCcEEEEEEE
Q psy16649         19 FHINYRDTAGQER-------------FRTITTAYYRGAMGIMLVYD   51 (83)
Q Consensus        19 ~~l~i~Dt~g~~~-------------~~~~~~~~~~~~~~~ilv~d   51 (83)
                      ..+.+.||+|-..             ...+...|..+++++++++.
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~  176 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVT  176 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEE
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEee
Confidence            3677999999532             23567789999999887763

>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=82.49  E-value=1.7  Score=22.45  Aligned_cols=46  Identities=20%  Similarity=0.238  Sum_probs=30.6

Q ss_pred             hhccCCcEEEEEEECCCh------hHH----HHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         38 AYYRGAMGIMLVYDITNE------KSF----DNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        38 ~~~~~~~~~ilv~d~~~~------~s~----~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      .-++++|.+++.-.....      +-+    .-++++.+.+.++++++.-+++++|
T Consensus        76 ~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsN  131 (154)
T d1y7ta1          76 VAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGN  131 (154)
T ss_dssp             HHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSS
T ss_pred             hhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecC
Confidence            456789999988765533      112    2245677777777766777888877

>d1ofua2 d.79.2.1 (A:209-317) Cell-division protein FtsZ {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: Tubulin C-terminal domain-like
family: Tubulin, C-terminal domain
domain: Cell-division protein FtsZ
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=82.37  E-value=1.8  Score=21.33  Aligned_cols=43  Identities=21%  Similarity=0.200  Sum_probs=35.2

Q ss_pred             hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEE
Q psy16649         38 AYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKML   80 (83)
Q Consensus        38 ~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piil   80 (83)
                      ..+++|.++++-+.....-++.++.+-.+.+++..+++.-++.
T Consensus        45 ~~i~~Ak~~Lv~i~gg~~~~l~e~~~~~~~i~~~~~~~a~ii~   87 (109)
T d1ofua2          45 VNLQGARGILVNITAGPDLSLGEYSDVGNIIEQFASEHATVKV   87 (109)
T ss_dssp             CCGGGCSEEEEEEEECTTCCHHHHHHHHHHHHHHSCTTSEEEE
T ss_pred             CchhcCceEEEEEEcCCCCCHHHHHHHHHHHHHhhccCcEEEE
Confidence            3578899999999888889999999988888888766655543

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=82.16  E-value=1.3  Score=22.64  Aligned_cols=40  Identities=15%  Similarity=0.087  Sum_probs=27.3

Q ss_pred             CCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEEEEeC
Q psy16649         42 GAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKMLLGN   83 (83)
Q Consensus        42 ~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~piilvgN   83 (83)
                      ++|++.+  +.+...+...+++.++++++....++|+++-|+
T Consensus        54 ~~d~v~l--S~~~~~~~~~~~~~~~~l~~~~~~~i~iivGG~   93 (137)
T d1ccwa_          54 KADAILV--SSLYGQGEIDCKGLRQKCDEAGLEGILLYVGGN   93 (137)
T ss_dssp             TCSEEEE--EECSSTHHHHHTTHHHHHHHTTCTTCEEEEEES
T ss_pred             CCCEEEE--eeccccchHHHHHHHHHHHHhccCCCEEEEeCC
Confidence            4565554  455556677788888888776556899887664

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.93  E-value=0.5  Score=24.96  Aligned_cols=13  Identities=8%  Similarity=0.141  Sum_probs=10.6

Q ss_pred             CCcceeeeeeccC
Q psy16649          1 SGENLCTLQIFRG   13 (83)
Q Consensus         1 ~GKss~~~~~~~~   13 (83)
                      ||||++..++...
T Consensus        25 sGKST~a~~l~~~   37 (172)
T d1yj5a2          25 AGKSTFIQEHLVS   37 (172)
T ss_dssp             SSHHHHHHHHTGG
T ss_pred             CCHHHHHHHHHHh
Confidence            7999999888553

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=81.67  E-value=0.059  Score=27.90  Aligned_cols=12  Identities=8%  Similarity=0.224  Sum_probs=10.6

Q ss_pred             CCcceeeeeecc
Q psy16649          1 SGENLCTLQIFR   12 (83)
Q Consensus         1 ~GKss~~~~~~~   12 (83)
                      ||||||+.++..
T Consensus        13 SGKTTL~~~L~~   24 (170)
T d1np6a_          13 TGKTTLLKKLIP   24 (170)
T ss_dssp             SCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            799999999874

>d1w5fa2 d.79.2.1 (A:216-336) Cell-division protein FtsZ {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: Tubulin C-terminal domain-like
family: Tubulin, C-terminal domain
domain: Cell-division protein FtsZ
species: Thermotoga maritima [TaxId: 2336]

Probab=81.51  E-value=1.6  Score=21.92  Aligned_cols=45  Identities=11%  Similarity=0.141  Sum_probs=36.1

Q ss_pred             chhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhcCCCceEE
Q psy16649         35 ITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENASANVEKM   79 (83)
Q Consensus        35 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~~~~~pii   79 (83)
                      +...-+++|.++++-+.....-++.++.+-.+.+++..+++.-++
T Consensus        46 Lld~~i~~A~gvLv~i~~g~d~sl~ei~~~~~~i~~~~~~da~ii   90 (121)
T d1w5fa2          46 LIEHPVENASSIVFNITAPSNIRMEEVHEAAMIIRQNSSEDADVK   90 (121)
T ss_dssp             TCCSCGGGCSEEEEEEEECTTCCHHHHHHHHHHHHTTSCTTSEEE
T ss_pred             cccccccccceEEEEEEeCCCCCHHHHHHHHHHHHHhcCCCCeEE
Confidence            444567889999999988888899999998888988776666544

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=81.46  E-value=1.9  Score=22.98  Aligned_cols=67  Identities=12%  Similarity=0.094  Sum_probs=41.1

Q ss_pred             eEEEEEEEeCCCchhhhc---------------------chhhhccCCcEEEEEEECCChh------HHHH----HHHHH
Q psy16649         17 HNFHINYRDTAGQERFRT---------------------ITTAYYRGAMGIMLVYDITNEK------SFDN----IKNWI   65 (83)
Q Consensus        17 ~~~~l~i~Dt~g~~~~~~---------------------~~~~~~~~~~~~ilv~d~~~~~------s~~~----~~~w~   65 (83)
                      ..+.|.+.|....+..-.                     -...-++++|.+++.-......      -++.    ++...
T Consensus        54 ~~i~L~L~di~~~~~~l~g~~mdl~d~a~~~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~  133 (175)
T d7mdha1          54 QPIALKLLGSERSFQALEGVAMELEDSLYPLLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQG  133 (175)
T ss_dssp             CCEEEEEECCGGGHHHHHHHHHHHHTTTCTTEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEEecCccccchhcchhhhhcccccccccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHH
Confidence            668889999876433210                     0123356789888886555431      1211    34566


Q ss_pred             HHHHHhcCCCceEEEEeC
Q psy16649         66 RNIEENASANVEKMLLGN   83 (83)
Q Consensus        66 ~~~~~~~~~~~piilvgN   83 (83)
                      +.+.+++++++-+++|+|
T Consensus       134 ~~i~~~a~~~~~vlvv~N  151 (175)
T d7mdha1         134 KALNAVASKNVKVLVVGN  151 (175)
T ss_dssp             HHHHHHSCTTCEEEECSS
T ss_pred             HHHHhhCCCCcEEEEecC
Confidence            667777766888888887

>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=81.37  E-value=0.81  Score=25.94  Aligned_cols=22  Identities=14%  Similarity=-0.155  Sum_probs=13.1

Q ss_pred             hhhccCCcEEEEEEECCChhHH
Q psy16649         37 TAYYRGAMGIMLVYDITNEKSF   58 (83)
Q Consensus        37 ~~~~~~~~~~ilv~d~~~~~s~   58 (83)
                      ...++.+|.++.|.|..++.+.
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss   31 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSS   31 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCC
Confidence            3445666666666666665443

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.06  E-value=0.1  Score=30.21  Aligned_cols=16  Identities=6%  Similarity=-0.041  Sum_probs=12.6

Q ss_pred             CCcceeeeeeccCccc
Q psy16649          1 SGENLCTLQIFRGCFQ   16 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~   16 (83)
                      +|||+|+.++....+.
T Consensus        43 sGKS~llN~l~~~~~~   58 (277)
T d1f5na2          43 TGKSYLMNKLAGKKKG   58 (277)
T ss_dssp             SSHHHHHHHHTTCSSC
T ss_pred             CCHHHHHHHHcCCCCC
Confidence            6999999998766543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=80.42  E-value=0.29  Score=28.03  Aligned_cols=67  Identities=9%  Similarity=0.025  Sum_probs=34.5

Q ss_pred             CCcceeeeeeccCccceEEEEEEEeCCCchhhhcchhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhc
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIKNWIRNIEENA   72 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~w~~~~~~~~   72 (83)
                      ||||++..++....-......-.+||-+.-+-..... .=-+.+-++ +..   +.+.++.-++++.+.+..
T Consensus        65 sGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~-~Gvd~d~v~-~~~---~~~~E~~~~~i~~l~~~~  131 (263)
T d1u94a1          65 SGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARK-LGVDIDNLL-CSQ---PDTGEQALEICDALARSG  131 (263)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHH-TTCCGGGCE-EEC---CSSHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHH-hCCCHHHEE-Eec---CCCHHHHHHHHHHHHhcC
Confidence            7999999887654432334456789877422111111 111223333 333   345555556666665543

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.22  E-value=0.099  Score=29.11  Aligned_cols=25  Identities=8%  Similarity=0.078  Sum_probs=16.0

Q ss_pred             CCcceeeeeeccCccceEEEEEEEe
Q psy16649          1 SGENLCTLQIFRGCFQHNFHINYRD   25 (83)
Q Consensus         1 ~GKss~~~~~~~~~~~~~~~l~i~D   25 (83)
                      |||||++.++....-...+-+-.-|
T Consensus        14 aGKTTll~~lL~~~~~~riaVI~Ne   38 (222)
T d1nija1          14 AGKTTLLRHILNEQHGYKIAVIENE   38 (222)
T ss_dssp             SSCHHHHHHHHHSCCCCCEEEECSS
T ss_pred             CCHHHHHHHHHhcCCCCcEEEEEec
Confidence            7999999998775433334443333