Citrus Sinensis ID: 030337

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------18
Protein Sequence
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL
Secondary Structure (PSIPRED)
cEEEEEEEEEcccccccccccccccEEEEEEccEEEEEEcEEcccccccccccccccccccEEEEEEEcccccHHHHHHHHcHHHHHHccccccEEEEEEcccccccHHHHHHccccccccHHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHcccccccccccccccccEEc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEccccccccccccEEEEEEEEEEccEEEEEEEEEEcccccccHHHHHHHHHccEEEEEEEcccHHHHHHHHHcHHHHHHHHccccEEEEEEEcHHHHHcHHHHHHccccccccHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHccccccccccccccccEEEc
Coil and Loop (DISEMBL)
MRFIYIICNyslgkqdyvptvfdnfsanvvvdgstvnlglwdtagqedynrlrplsyrgaDVFILAFSLISKASYENVAKKWIPelrhyapgvpiilvgtkldlrddkqffidhpgavpittAQGEELRKligspayiecssKTQQNVKAVFDAAIKVVlqppkqkkkkkkshracsil
Flexible Loop (DISEMBL)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKvvlqppkqkkkkkkshracsil
Low Complexity Region (SEG)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLqppkqkkkkkkSHRACSIL
Disordered region (IsUnstruct)
**FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL*******************
Disordered Region (DISOPRED)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV**************HRACSIL
Disordered Region (DISEMBL)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP*****************
Disordered Region (DISPRO)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQ**************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	179	2.2.26 [Sep-21-2011]
O04369	197	Rac-like GTP-binding prot	N/A	no	0.916	0.832	0.932	1e-81
Q39435	197	Rac-like GTP-binding prot	N/A	no	0.916	0.832	0.932	3e-80
Q6EP31	197	Rac-like GTP-binding prot	yes	no	0.916	0.832	0.926	9e-80
Q6Z7L8	197	Rac-like GTP-binding prot	yes	no	0.916	0.832	0.835	1e-79
Q38912	198	Rac-like GTP-binding prot	no	no	0.916	0.828	0.878	2e-79
Q35638	197	Rac-like GTP-binding prot	N/A	no	0.916	0.832	0.926	4e-79
Q38937	196	Rac-like GTP-binding prot	no	no	0.810	0.739	0.972	5e-79
P92978	197	Rac-like GTP-binding prot	no	no	0.916	0.832	0.920	1e-78
Q38902	197	Rac-like GTP-binding prot	no	no	0.916	0.832	0.914	1e-78
Q38919	195	Rac-like GTP-binding prot	no	no	0.810	0.743	0.958	4e-78

>sp|O04369|RAC1_LOTJA Rac-like GTP-binding protein RAC1 OS=Lotus japonicus GN=RAC1 PE=2 SV=1

 Score =  301 bits (771), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 160/164 (97%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDK F  DHPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKHFLADHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKK+++ ++CSIL
Sbjct: 154 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKREAQKSCSIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.
Lotus japonicus (taxid: 34305)

>sp|Q39435|RAC1_BETVU Rac-like GTP-binding protein RHO1 OS=Beta vulgaris GN=RHO1 PE=2 SV=1

 Score =  297 bits (760), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 161/164 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVKAVFDAAIKVVLQPPK KKKK K+ +ACSIL
Sbjct: 154 AYIECSSKTQQNVKAVFDAAIKVVLQPPKTKKKKSKAQKACSIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Beta vulgaris (taxid: 161934)

>sp|Q6EP31|RAC5_ORYSJ Rac-like GTP-binding protein 5 OS=Oryza sativa subsp. japonica GN=RAC5 PE=2 SV=2

 Score =  295 bits (756), Expect = 9e-80,   Method: Compositional matrix adjust.
 Identities = 152/164 (92%), Positives = 161/164 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPELRHYAPGVPIILVGTKLDLRDDKQFF+DHPGAVPI+TAQGEELRKLIG+ 
Sbjct: 94  ENVSKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFVDHPGAVPISTAQGEELRKLIGAA 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQN+KAVFDAAIKVVLQPPKQKKKKKK+ + C+IL
Sbjct: 154 AYIECSSKTQQNIKAVFDAAIKVVLQPPKQKKKKKKAQKGCAIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6Z7L8|RAC7_ORYSJ Rac-like GTP-binding protein 7 OS=Oryza sativa subsp. japonica GN=RAC7 PE=2 SV=1

 Score =  295 bits (755), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 137/164 (83%), Positives = 152/164 (92%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+ KKWIPELRHYAP VPI+LVGTKLDLR+DKQFF+DHPG  PI+TAQGEEL+++IG+ 
Sbjct: 94  ENIHKKWIPELRHYAPNVPIVLVGTKLDLREDKQFFLDHPGLAPISTAQGEELKRMIGAA 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVK+VFD+AIKVVL PPK KKK  +  R+C IL
Sbjct: 154 AYIECSSKTQQNVKSVFDSAIKVVLCPPKPKKKNTRKQRSCWIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q38912|RAC3_ARATH Rac-like GTP-binding protein ARAC3 OS=Arabidopsis thaliana GN=ARAC3 PE=1 SV=1

 Score =  294 bits (752), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 145/165 (87%), Positives = 160/165 (96%), Gaps = 1/165 (0%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANV+VDG+T+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSL+SKASY
Sbjct: 34  DYVPTVFDNFSANVIVDGNTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLVSKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKW+PELRHYAPGVPIILVGTKLDLRDDKQFF +HPGAVPI+TAQGEEL+KLIG+P
Sbjct: 94  ENVSKKWVPELRHYAPGVPIILVGTKLDLRDDKQFFAEHPGAVPISTAQGEELKKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPP-KQKKKKKKSHRACSIL 179
           AYIECS+KTQQNVKAVFDAAIKVVLQPP  +KKKK+KS + CSIL
Sbjct: 154 AYIECSAKTQQNVKAVFDAAIKVVLQPPKNKKKKKRKSQKGCSIL 198

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation. May be involved in cell polarity control during the actin-dependent tip growth of root hairs.

Arabidopsis thaliana (taxid: 3702)

>sp|Q35638|RHO1_PEA Rac-like GTP-binding protein RHO1 OS=Pisum sativum GN=RHO1 PE=2 SV=1

 Score =  293 bits (750), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 152/164 (92%), Positives = 161/164 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVV+GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVNGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPEL+HYAPGVPIILVGTKLDLRDDKQFF+DHPGAVPITTAQGEELRKLI +P
Sbjct: 94  ENVSKKWIPELKHYAPGVPIILVGTKLDLRDDKQFFVDHPGAVPITTAQGEELRKLINAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSK+QQNVKAVFDAAI+VVLQPPKQKKKK K+ +ACSIL
Sbjct: 154 AYIECSSKSQQNVKAVFDAAIRVVLQPPKQKKKKSKAQKACSIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation (By similarity). May be involved in cell polarity control during the actin-dependent tip growth of pollen tubes.

Pisum sativum (taxid: 3888)

>sp|Q38937|RAC5_ARATH Rac-like GTP-binding protein ARAC5 OS=Arabidopsis thaliana GN=ARAC5 PE=1 SV=1

 Score =  293 bits (749), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 141/145 (97%), Positives = 143/145 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIGSP
Sbjct: 94  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
            YIECSSKTQQNVKAVFDAAIKVVL
Sbjct: 154 IYIECSSKTQQNVKAVFDAAIKVVL 178

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Arabidopsis thaliana (taxid: 3702)

>sp|P92978|RAC11_ARATH Rac-like GTP-binding protein ARAC11 OS=Arabidopsis thaliana GN=ARAC11 PE=1 SV=2

 Score =  292 bits (747), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 151/164 (92%), Positives = 160/164 (97%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVV+GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVNGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK IG+P
Sbjct: 94  ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKQIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIECSSKTQ+NVKAVFDAAI+VVLQPPKQKKKK K+ +ACSIL
Sbjct: 154 TYIECSSKTQENVKAVFDAAIRVVLQPPKQKKKKSKAQKACSIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38902|RAC1_ARATH Rac-like GTP-binding protein ARAC1 OS=Arabidopsis thaliana GN=ARAC1 PE=2 SV=1

 Score =  291 bits (746), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 150/164 (91%), Positives = 161/164 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL+KLIG+P
Sbjct: 94  ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTAQGEELKKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQ+NVK VFDAAI+VVLQPPKQKKKK K+ +ACSIL
Sbjct: 154 AYIECSSKTQENVKGVFDAAIRVVLQPPKQKKKKSKAQKACSIL 197

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38919|RAC4_ARATH Rac-like GTP-binding protein ARAC4 OS=Arabidopsis thaliana GN=ARAC4 PE=1 SV=1

 Score =  290 bits (742), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 139/145 (95%), Positives = 142/145 (97%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 33  DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 92

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIGS 
Sbjct: 93  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSA 152

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
            YIECSSKTQQNVKAVFDAAIKVVL
Sbjct: 153 VYIECSSKTQQNVKAVFDAAIKVVL 177

Inactive GDP-bound Rho GTPases reside in the cytosol, are found in a complex with Rho GDP-dissociation inhibitors (Rho GDIs), and are released from the GDI protein in order to translocate to membranes upon activation (By similarity). May be involved in cell polarity control during the actin-dependent tip growth of root hairs. May regulate a WAVE complex that activates the Arp2/3 complex.

Arabidopsis thaliana (taxid: 3702)

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	179
388518421	197	unknown [Lotus japonicus]	0.916	0.832	0.939	4e-87
4586584	197	rac-type small GTP-binding protein [Cice	0.916	0.832	0.920	2e-85
357473803	197	Rac-like GTP-binding protein [Medicago t	0.916	0.832	0.908	2e-84
47600747	197	small GTPase Rac4 [Medicago sativa]	0.916	0.832	0.902	2e-84
388518567	197	unknown [Medicago truncatula]	0.916	0.832	0.902	1e-83
74095369	197	putative Rho GTPase [Medicago sativa sub	0.916	0.832	0.896	4e-83
351721849	196	uncharacterized protein LOC100499696 [Gl	0.910	0.831	0.939	1e-81
317106601	197	JHL20J20.16 [Jatropha curcas]	0.916	0.832	0.926	2e-81
225428021	198	PREDICTED: rac-like GTP-binding protein	0.916	0.828	0.939	2e-81
449450502	197	PREDICTED: rac-like GTP-binding protein	0.916	0.832	0.932	3e-81

>gi|388518421|gb|AFK47272.1| unknown [Lotus japonicus]

 Score =  325 bits (834), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 154/164 (93%), Positives = 161/164 (98%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS+A Y
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISRAGY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI+HPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFINHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK K+K+ +ACSIL
Sbjct: 154 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKNKRKAQKACSIL 197

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4586584|dbj|BAA76424.1| rac-type small GTP-binding protein [Cicer arietinum]

 Score =  320 bits (820), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 151/164 (92%), Positives = 159/164 (96%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGST+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLIS+ASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISRASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF DHPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFQDHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIECSSKTQ+NVKAVFDAAIKVVLQPPKQKK K+K  +ACSIL
Sbjct: 154 VYIECSSKTQKNVKAVFDAAIKVVLQPPKQKKTKRKGQKACSIL 197

Source: Cicer arietinum

Species: Cicer arietinum

Genus: Cicer

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473803|ref|XP_003607186.1| Rac-like GTP-binding protein [Medicago truncatula] gi|20269983|gb|AAM18133.1|AF498357_1 small G-protein ROP3 [Medicago truncatula] gi|355508241|gb|AES89383.1| Rac-like GTP-binding protein [Medicago truncatula]

 Score =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 149/164 (90%), Positives = 157/164 (95%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGST+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDD QFF DHPGA PITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDSQFFQDHPGAAPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIECSSKTQ+NVKAVFD+AIKVVLQPPKQKK K+K  +ACSIL
Sbjct: 154 VYIECSSKTQKNVKAVFDSAIKVVLQPPKQKKTKRKGQKACSIL 197

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|47600747|emb|CAG30067.1| small GTPase Rac4 [Medicago sativa]

 Score =  316 bits (809), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 148/164 (90%), Positives = 157/164 (95%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGST+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDD QFF DHPGA PITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDSQFFQDHPGAAPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIECSSKTQ+NVKAVFD+AIKVVLQPPKQKK K+K  +ACSI+
Sbjct: 154 VYIECSSKTQKNVKAVFDSAIKVVLQPPKQKKTKRKGQKACSIM 197

Source: Medicago sativa

Species: Medicago sativa

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388518567|gb|AFK47345.1| unknown [Medicago truncatula]

 Score =  314 bits (804), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 148/164 (90%), Positives = 156/164 (95%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGST+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDD QFF DHPGA  ITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDSQFFQDHPGAASITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIECSSKTQ+NVKAVFD+AIKVVLQPPKQKK K+K  +ACSIL
Sbjct: 154 VYIECSSKTQKNVKAVFDSAIKVVLQPPKQKKTKRKGQKACSIL 197

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|74095369|emb|CAI84892.1| putative Rho GTPase [Medicago sativa subsp. x varia]

 Score =  312 bits (799), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 147/164 (89%), Positives = 156/164 (95%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGST+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDD QFF DHPGA PITTAQGEEL+KLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDSQFFQDHPGAAPITTAQGEELKKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
            YIEC SKTQ+NVKAVFD+AIKVVLQPPKQKK K+K  +ACSIL
Sbjct: 154 IYIECYSKTQKNVKAVFDSAIKVVLQPPKQKKTKRKGQKACSIL 197

Source: Medicago sativa subsp. x varia

Species: Medicago sativa

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721849|ref|NP_001238503.1| uncharacterized protein LOC100499696 [Glycine max] gi|255625867|gb|ACU13278.1| unknown [Glycine max]

 Score =  306 bits (785), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 154/164 (93%), Positives = 159/164 (96%), Gaps = 1/164 (0%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF+DHPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFMDHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVKAVFDAAIKVV+QPPK KKK+K    ACSIL
Sbjct: 154 AYIECSSKTQQNVKAVFDAAIKVVIQPPKLKKKRKTQK-ACSIL 196

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317106601|dbj|BAJ53109.1| JHL20J20.16 [Jatropha curcas]

 Score =  306 bits (785), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 152/164 (92%), Positives = 157/164 (95%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENVAKKWIPEL+HYAPGVP+ILVGTKLDLRDD QFFIDHPGA PITTAQGEELRKLIG+P
Sbjct: 94  ENVAKKWIPELKHYAPGVPVILVGTKLDLRDDDQFFIDHPGAAPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVK VFDAAIKVVLQPPK+ KKKKK   +CSIL
Sbjct: 154 AYIECSSKTQQNVKGVFDAAIKVVLQPPKKNKKKKKGQTSCSIL 197

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428021|ref|XP_002278633.1| PREDICTED: rac-like GTP-binding protein RAC1 isoform 2 [Vitis vinifera] gi|225428023|ref|XP_002278595.1| PREDICTED: rac-like GTP-binding protein RAC1 isoform 1 [Vitis vinifera] gi|147768427|emb|CAN73627.1| hypothetical protein VITISV_026639 [Vitis vinifera] gi|297744613|emb|CBI37875.3| unnamed protein product [Vitis vinifera]

 Score =  306 bits (784), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 155/165 (93%), Positives = 163/165 (98%), Gaps = 1/165 (0%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG+P
Sbjct: 94  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPP-KQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVKAVFDAAIKVVLQPP ++K+KK+K+ +ACSIL
Sbjct: 154 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKRKKRKAQKACSIL 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450502|ref|XP_004143001.1| PREDICTED: rac-like GTP-binding protein RAC1-like [Cucumis sativus] gi|449521609|ref|XP_004167822.1| PREDICTED: rac-like GTP-binding protein RAC1-like [Cucumis sativus]

 Score =  306 bits (783), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 153/164 (93%), Positives = 158/164 (96%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENVAKKWIPELRHYAPGVPI+LVGTKLDLRDDKQFF+DHPGAVPI+T QGEELRK+IG+P
Sbjct: 94  ENVAKKWIPELRHYAPGVPIVLVGTKLDLRDDKQFFVDHPGAVPISTVQGEELRKVIGAP 153

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           AYIECSSKTQQNVK VFDAAIKVVLQPPK KKKKKKS   CSIL
Sbjct: 154 AYIECSSKTQQNVKGVFDAAIKVVLQPPKSKKKKKKSQNVCSIL 197

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	179
TAIR|locus:2827916	197	ARAC1 "Arabidopsis RAC-like 1"	0.916	0.832	0.853	1.6e-72
TAIR|locus:2080878	197	ROP1 "RHO-related protein from	0.916	0.832	0.859	1.6e-72
TAIR|locus:2204380	196	ARAC5 "RAC-like GTP binding pr	0.810	0.739	0.972	2.5e-72
TAIR|locus:2125399	197	RAC6 "RAC-like 6" [Arabidopsis	0.916	0.832	0.841	1.4e-71
TAIR|locus:2198566	195	ROP2 "RHO-related protein from	0.810	0.743	0.958	1.8e-71
UNIPROTKB|Q6ZHA3	197	RAC6 "Rac-like GTP-binding pro	0.916	0.832	0.853	2.3e-71
TAIR|locus:2131606	198	RAC3 "RAC-like 3" [Arabidopsis	0.916	0.828	0.830	3.7e-71
TAIR|locus:2161343	201	RAC2 "RAC-like 2" [Arabidopsis	0.810	0.721	0.868	2.2e-66
UNIPROTKB|Q6Z808	214	RAC3 "Rac-like GTP-binding pro	0.860	0.719	0.796	5.8e-66
TAIR|locus:2170778	215	RAC10 "RAC-like 10" [Arabidops	0.860	0.716	0.783	1.8e-64

TAIR|locus:2827916 ARAC1 "Arabidopsis RAC-like 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 733 (263.1 bits), Expect = 1.6e-72, P = 1.6e-72
 Identities = 140/164 (85%), Positives = 151/164 (92%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL+KLIG+P
Sbjct:    94 ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTAQGEELKKLIGAP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
             AYIECSSKTQ+NVK VFDAAI+VVL           + +ACSIL
Sbjct:   154 AYIECSSKTQENVKGVFDAAIRVVLQPPKQKKKKSKAQKACSIL 197

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

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

GO:0009738 "abscisic acid mediated signaling pathway" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0009734 "auxin mediated signaling pathway" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

TAIR|locus:2080878 ROP1 "RHO-related protein from plants 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 733 (263.1 bits), Expect = 1.6e-72, P = 1.6e-72
 Identities = 141/164 (85%), Positives = 150/164 (91%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVV+GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVNGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK IG+P
Sbjct:    94 ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKQIGAP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
              YIECSSKTQ+NVKAVFDAAI+VVL           + +ACSIL
Sbjct:   154 TYIECSSKTQENVKAVFDAAIRVVLQPPKQKKKKSKAQKACSIL 197

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

GO:0005622 "intracellular" evidence=IEA

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

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

GO:0005886 "plasma membrane" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0030833 "regulation of actin filament polymerization" evidence=IGI

GO:0030834 "regulation of actin filament depolymerization" evidence=IGI

GO:0017157 "regulation of exocytosis" evidence=IDA

GO:0051650 "establishment of vesicle localization" evidence=IDA

GO:0032794 "GTPase activating protein binding" evidence=IPI

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

GO:0007015 "actin filament organization" evidence=RCA

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

GO:0030036 "actin cytoskeleton organization" evidence=RCA

GO:0030048 "actin filament-based movement" evidence=RCA

GO:0003924 "GTPase activity" evidence=ISS

TAIR|locus:2204380 ARAC5 "RAC-like GTP binding protein 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 731 (262.4 bits), Expect = 2.5e-72, P = 2.5e-72
 Identities = 141/145 (97%), Positives = 143/145 (98%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIGSP
Sbjct:    94 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVL 160
              YIECSSKTQQNVKAVFDAAIKVVL
Sbjct:   154 IYIECSSKTQQNVKAVFDAAIKVVL 178

GO:0005525 "GTP binding" evidence=IEA;IDA;TAS

GO:0005622 "intracellular" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0003924 "GTPase activity" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0009524 "phragmoplast" evidence=IDA

GO:0019901 "protein kinase binding" evidence=IPI

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

TAIR|locus:2125399 RAC6 "RAC-like 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 724 (259.9 bits), Expect = 1.4e-71, P = 1.4e-71
 Identities = 138/164 (84%), Positives = 150/164 (91%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIG+P
Sbjct:    94 ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
             AYIECSSK+Q+NVK VFDAAI+VVL           + +ACSIL
Sbjct:   154 AYIECSSKSQENVKGVFDAAIRVVLQPPKQKKKKNKAQKACSIL 197

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

GO:0005622 "intracellular" evidence=IEA

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

TAIR|locus:2198566 ROP2 "RHO-related protein from plants 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 723 (259.6 bits), Expect = 1.8e-71, P = 1.8e-71
 Identities = 139/145 (95%), Positives = 142/145 (97%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct:    33 DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 92

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             EN+AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIGS 
Sbjct:    93 ENIAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSA 152

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVL 160
              YIECSSKTQQNVKAVFDAAIKVVL
Sbjct:   153 VYIECSSKTQQNVKAVFDAAIKVVL 177

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA;IMP

GO:0000902 "cell morphogenesis" evidence=IGI

GO:0005886 "plasma membrane" evidence=IDA

GO:0009416 "response to light stimulus" evidence=IDA

GO:0010119 "regulation of stomatal movement" evidence=IMP

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

UNIPROTKB|Q6ZHA3 RAC6 "Rac-like GTP-binding protein 6" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 722 (259.2 bits), Expect = 2.3e-71, P = 2.3e-71
 Identities = 140/164 (85%), Positives = 146/164 (89%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENV+KKWIPEL+HYAPGVPIILVGTKLDLRDDKQFF+DHPGAVPITTAQGEELRK IG+P
Sbjct:    94 ENVSKKWIPELKHYAPGVPIILVGTKLDLRDDKQFFVDHPGAVPITTAQGEELRKQIGAP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
              YIECSSKTQ NVK VFDAAIKVVL              ACSIL
Sbjct:   154 YYIECSSKTQLNVKGVFDAAIKVVLQPPKAKKKKKAQRGACSIL 197

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2131606 RAC3 "RAC-like 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 720 (258.5 bits), Expect = 3.7e-71, P = 3.7e-71
 Identities = 137/165 (83%), Positives = 150/165 (90%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANV+VDG+T+NLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSL+SKASY
Sbjct:    34 DYVPTVFDNFSANVIVDGNTINLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLVSKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             ENV+KKW+PELRHYAPGVPIILVGTKLDLRDDKQFF +HPGAVPI+TAQGEEL+KLIG+P
Sbjct:    94 ENVSKKWVPELRHYAPGVPIILVGTKLDLRDDKQFFAEHPGAVPISTAQGEELKKLIGAP 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVLXX-XXXXXXXXXSHRACSIL 179
             AYIECS+KTQQNVKAVFDAAIKVVL            S + CSIL
Sbjct:   154 AYIECSAKTQQNVKAVFDAAIKVVLQPPKNKKKKKRKSQKGCSIL 198

GO:0003924 "GTPase activity" evidence=IEA;IDA

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

GO:0005622 "intracellular" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0030427 "site of polarized growth" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0000226 "microtubule cytoskeleton organization" evidence=RCA

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009086 "methionine biosynthetic process" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

TAIR|locus:2161343 RAC2 "RAC-like 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 675 (242.7 bits), Expect = 2.2e-66, P = 2.2e-66
 Identities = 126/145 (86%), Positives = 136/145 (93%)

Query:    16 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
             DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct:    34 DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93

Query:    76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
             EN+ KKW+PEL+HYAPG+PI+LVGTKLDLRDDKQF  DHPGA  ITTAQGEELRK+IG+ 
Sbjct:    94 ENIHKKWLPELKHYAPGIPIVLVGTKLDLRDDKQFLKDHPGAASITTAQGEELRKMIGAV 153

Query:   136 AYIECSSKTQQNVKAVFDAAIKVVL 160
              Y+ECSSKTQQNVKAVFD AI+V L
Sbjct:   154 RYLECSSKTQQNVKAVFDTAIRVAL 178

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

GO:0005622 "intracellular" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0007015 "actin filament organization" evidence=RCA

GO:0009832 "plant-type cell wall biogenesis" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

UNIPROTKB|Q6Z808 RAC3 "Rac-like GTP-binding protein 3" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 671 (241.3 bits), Expect = 5.8e-66, P = 5.8e-66
 Identities = 125/157 (79%), Positives = 142/157 (90%)

Query:     6 IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
             +IC Y+  K   DY+PTVFDNFSANVVVD +TVNLGLWDTAGQEDYNRLRPLSYRGADVF
Sbjct:    25 LIC-YTSNKFPTDYIPTVFDNFSANVVVDSTTVNLGLWDTAGQEDYNRLRPLSYRGADVF 83

Query:    64 ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
             +LAFSL+S+ASYEN+ KKWIPEL+HYAPGVPI+LVGTKLDLR+DK + +DHPG +P+TTA
Sbjct:    84 VLAFSLVSRASYENIMKKWIPELQHYAPGVPIVLVGTKLDLREDKHYLLDHPGMIPVTTA 143

Query:   124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             QGEELRK IG+  YIECSSKTQQNVK VFDAAIKVV+
Sbjct:   144 QGEELRKQIGAAYYIECSSKTQQNVKGVFDAAIKVVI 180

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2170778 RAC10 "RAC-like 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 657 (236.3 bits), Expect = 1.8e-64, P = 1.8e-64
 Identities = 123/157 (78%), Positives = 142/157 (90%)

Query:     6 IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
             +IC Y+  K   DY+PTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVF
Sbjct:    25 LIC-YTSNKFPTDYIPTVFDNFSANVVVEGTTVNLGLWDTAGQEDYNRLRPLSYRGADVF 83

Query:    64 ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
             +L+FSL+S+ASYENV KKWIPEL+H+APGVP++LVGTKLDLR+DK +  DHPG  P+TTA
Sbjct:    84 VLSFSLVSRASYENVFKKWIPELQHFAPGVPLVLVGTKLDLREDKHYLADHPGLSPVTTA 143

Query:   124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             QGEELRKLIG+  YIECSSKTQQNVKAVFD+AIK V+
Sbjct:   144 QGEELRKLIGATYYIECSSKTQQNVKAVFDSAIKEVI 180

GO:0005576 "extracellular region" evidence=ISM

GO:0005886 "plasma membrane" evidence=IDA

GO:0019901 "protein kinase binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=IDA

GO:0019903 "protein phosphatase binding" evidence=IPI

GO:0007015 "actin filament organization" evidence=RCA

GO:0009531 "secondary cell wall" evidence=IDA

GO:0009664 "plant-type cell wall organization" evidence=IMP

GO:0005525 "GTP binding" evidence=TAS

---

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)
P34144	RAC1A_DICDI	No assigned EC number	0.5783	0.9050	0.8350	yes	no
Q6Z7L8	RAC7_ORYSJ	No assigned EC number	0.8353	0.9162	0.8324	yes	no
Q6RUV5	RAC1_RAT	No assigned EC number	0.6100	0.8770	0.8177	yes	no
P63000	RAC1_HUMAN	No assigned EC number	0.6100	0.8770	0.8177	yes	no
Q6ZHA3	RAC6_ORYSJ	No assigned EC number	0.9085	0.9162	0.8324	no	no
C4YDI6	CDC42_CANAW	No assigned EC number	0.5056	0.9441	0.8848	N/A	no
Q9SBJ6	RAC6_ARATH	No assigned EC number	0.9024	0.9162	0.8324	no	no
P40792	RAC1_DROME	No assigned EC number	0.5722	0.8938	0.8333	yes	no
P62998	RAC1_BOVIN	No assigned EC number	0.6100	0.8770	0.8177	yes	no
P62999	RAC1_CANFA	No assigned EC number	0.6100	0.8770	0.8177	yes	no
P19073	CDC42_YEAST	No assigned EC number	0.5120	0.8882	0.8324	yes	no
Q41253	RAC13_GOSHI	No assigned EC number	0.8827	0.8100	0.7397	N/A	no
Q38902	RAC1_ARATH	No assigned EC number	0.9146	0.9162	0.8324	no	no
Q41254	RAC9_GOSHI	No assigned EC number	0.8689	0.8100	0.7397	N/A	no
Q24814	RACA_ENTHI	No assigned EC number	0.5365	0.9050	0.8265	N/A	no
O04369	RAC1_LOTJA	No assigned EC number	0.9329	0.9162	0.8324	N/A	no
Q40220	RAC2_LOTJA	No assigned EC number	0.8767	0.8156	0.7448	N/A	no
Q38919	RAC4_ARATH	No assigned EC number	0.9586	0.8100	0.7435	no	no
Q35638	RHO1_PEA	No assigned EC number	0.9268	0.9162	0.8324	N/A	no
P0CY33	CDC42_CANAL	No assigned EC number	0.5056	0.9441	0.8848	N/A	no
P63001	RAC1_MOUSE	No assigned EC number	0.6100	0.8770	0.8177	yes	no
P92978	RAC11_ARATH	No assigned EC number	0.9207	0.9162	0.8324	no	no
Q38937	RAC5_ARATH	No assigned EC number	0.9724	0.8100	0.7397	no	no
Q38912	RAC3_ARATH	No assigned EC number	0.8787	0.9162	0.8282	no	no
Q39435	RAC1_BETVU	No assigned EC number	0.9329	0.9162	0.8324	N/A	no
Q6EP31	RAC5_ORYSJ	No assigned EC number	0.9268	0.9162	0.8324	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	179
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	1e-112
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-86
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	4e-80
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	3e-69
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	9e-68
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	6e-59
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	3e-58
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	8e-57
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	1e-56
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-54
pfam00071	162	pfam00071, Ras, Ras family	2e-53
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-48
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-44
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	1e-42
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	6e-38
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-32
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-31
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	2e-31
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-31
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	7e-31
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	4e-30
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-25
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	8e-25
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-24
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	4e-24
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	4e-24
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	4e-24
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	8e-24
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-22
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-22
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	2e-21
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-21
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	6e-21
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-20
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	4e-20
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-19
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-19
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-19
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-19
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	1e-18
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	1e-18
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-18
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-18
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	4e-18
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	1e-17
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-17
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-17
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	2e-17
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-17
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	3e-17
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	5e-17
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	7e-17
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	7e-17
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-16
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-16
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	4e-16
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	9e-16
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	5e-15
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	8e-15
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	1e-14
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-14
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	5e-14
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	5e-14
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	7e-13
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-12
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	1e-12
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	3e-12
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	4e-12
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	4e-12
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	6e-12
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	9e-12
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	1e-11
pfam08477	116	pfam08477, Miro, Miro-like protein	5e-11
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	8e-11
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	8e-11
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-10
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	6e-10
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	7e-10
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-09
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	7e-09
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	9e-09
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	1e-08
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	1e-08
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	1e-06
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	2e-05
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	4e-05

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

 Score =  315 bits (809), Expect = e-112
 Identities = 137/145 (94%), Positives = 141/145 (97%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 29  DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 88

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV KKWIPELRHYAPGVPI+LVGTKLDLRDDKQFF DHPGAVPITTAQGEELRK IG+ 
Sbjct: 89  ENVLKKWIPELRHYAPGVPIVLVGTKLDLRDDKQFFADHPGAVPITTAQGEELRKQIGAA 148

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
           AYIECSSKTQQNVKAVFDAAIKVVL
Sbjct: 149 AYIECSSKTQQNVKAVFDAAIKVVL 173

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

 Score =  250 bits (642), Expect = 2e-86
 Identities = 86/149 (57%), Positives = 109/149 (73%), Gaps = 2/149 (1%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVF+N+SA+V VDG  V LGLWDTAGQEDY+RLRPLSY   DVF++ FS+ S AS+
Sbjct: 26  DYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASF 85

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLIG 133
           ENV +KW PE++H+ P VPIILVGTKLDLR+DK    +       P+T  QG+ L K IG
Sbjct: 86  ENVKEKWYPEVKHFCPNVPIILVGTKLDLRNDKSTLEELSKKKQEPVTYEQGQALAKRIG 145

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQP 162
           +  Y+ECS+ TQ+ V+ VF+ AI+  L  
Sbjct: 146 AVKYLECSALTQEGVREVFEEAIRAALNK 174

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

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

 Score =  234 bits (600), Expect = 4e-80
 Identities = 88/145 (60%), Positives = 107/145 (73%), Gaps = 1/145 (0%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +YVPTVFDN+SANV VDG  VNLGLWDTAGQE+Y+RLRPLSY   DVF+L FS+ S +S
Sbjct: 27  TEYVPTVFDNYSANVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPQTDVFLLCFSVDSPSS 86

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH-PGAVPITTAQGEELRKLIG 133
           +ENV  KW PE++HY P VPIILVGTK+DLRDD            PIT  +GE+L K IG
Sbjct: 87  FENVKTKWYPEIKHYCPNVPIILVGTKIDLRDDGNTLKKLEKKQKPITPEEGEKLAKEIG 146

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKV 158
           +  Y+ECS+ TQ+ +K VFD AI+ 
Sbjct: 147 AVKYMECSALTQEGLKEVFDEAIRA 171

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

 Score =  207 bits (529), Expect = 3e-69
 Identities = 90/146 (61%), Positives = 109/146 (74%), Gaps = 2/146 (1%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 29  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 88

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 89  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 148

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVV 159
           +  Y+ECS+ TQ+ +K VFD AI+ V
Sbjct: 149 AVKYLECSALTQRGLKTVFDEAIRAV 174

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

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

 Score =  204 bits (521), Expect = 9e-68
 Identities = 85/175 (48%), Positives = 112/175 (64%), Gaps = 5/175 (2%)

Query: 10  YSLGK--QDYVPTVFDNFSANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILA 66
           Y+ G   ++YVPTVF+N+   + V +G  + L LWDTAGQEDY+RLRPLSY   DV ++ 
Sbjct: 23  YAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQEDYDRLRPLSYPDVDVILIC 82

Query: 67  FSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQ--FFIDHPGAVPITTAQ 124
           +S+ +  S +NV  KW PE+ H+ PG PI+LVG K DLR DK     +   G  P+T  Q
Sbjct: 83  YSVDNPTSLDNVEDKWYPEVNHFCPGTPIVLVGLKTDLRKDKNSVSKLRAQGLEPVTPEQ 142

Query: 125 GEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           GE + K IG+ AYIECS+K  +NV  VFDAAI V L    +  +KKK  + C IL
Sbjct: 143 GESVAKSIGAVAYIECSAKLMENVDEVFDAAINVALSKSGRAARKKKKKKKCVIL 197

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

 Score =  182 bits (462), Expect = 6e-59
 Identities = 83/158 (52%), Positives = 104/158 (65%), Gaps = 2/158 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++Y+PTVFDN+SA   VDG TV+L LWDTAGQE+Y+RLR LSY   +VFI+ FS+ S +S
Sbjct: 30  KEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSS 89

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           YENV  KW PE+ H+ P VPI+LVGTK DLR+D      +   G  PIT  QG  L K I
Sbjct: 90  YENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQI 149

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKK 170
            +  Y+ECS+  Q  VK VF  A++ VL P   K  K 
Sbjct: 150 HAVKYLECSALNQDGVKEVFAEAVRAVLNPTPIKDTKS 187

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

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

 Score =  179 bits (456), Expect = 3e-58
 Identities = 72/143 (50%), Positives = 102/143 (71%), Gaps = 2/143 (1%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +YVPT FDNFS  V+VDG  V L L DTAGQ+++++LRPL Y   DVF+L FS+++ +S+
Sbjct: 28  EYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSF 87

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLIG 133
           +N+++KWIPE+R + P  PIILVGT+ DLR D    I     G  P++ ++ + L + IG
Sbjct: 88  QNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIG 147

Query: 134 SPAYIECSSKTQQNVKAVFDAAI 156
           +  YIECS+ TQ+N+K VFD AI
Sbjct: 148 ACEYIECSALTQKNLKEVFDTAI 170

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

 Score =  176 bits (447), Expect = 8e-57
 Identities = 71/146 (48%), Positives = 99/146 (67%), Gaps = 2/146 (1%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 30  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 89

Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+    +       P+   +G  + + IG+
Sbjct: 90  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGA 149

Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT++ V+ VF+ A +  L
Sbjct: 150 FGYLECSAKTKEGVREVFEMATRAAL 175

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

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

 Score =  175 bits (446), Expect = 1e-56
 Identities = 73/148 (49%), Positives = 102/148 (68%), Gaps = 2/148 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF++ FS++S +S
Sbjct: 28  SEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSS 87

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           +ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT   GE+L + +
Sbjct: 88  FENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDL 147

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
            +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 148 KAVKYVECSALTQKGLKNVFDEAILAAL 175

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

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

 Score =  169 bits (430), Expect = 2e-54
 Identities = 76/148 (51%), Positives = 110/148 (74%), Gaps = 2/148 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVFD+++ +V V G    LGL+DTAGQEDY+RLRPLSY   DVF++ FS+++ AS
Sbjct: 27  EEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPAS 86

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           ++NV ++W+PEL+ YAP VP +L+GT++DLRDD +    ++     PIT  QG++L K I
Sbjct: 87  FQNVKEEWVPELKEYAPNVPYLLIGTQIDLRDDPKTLARLNDMKEKPITVEQGQKLAKEI 146

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
           G+  Y+ECS+ TQ+ +K VFD AI  +L
Sbjct: 147 GACCYVECSALTQKGLKTVFDEAIIAIL 174

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

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

 Score =  166 bits (424), Expect = 2e-53
 Identities = 62/149 (41%), Positives = 94/149 (63%), Gaps = 14/149 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++Y+PT+  D ++  + VDG TV L +WDTAGQE +  LRPL YRGA  F+L + + S+ 
Sbjct: 26  EEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRALRPLYYRGAQGFLLVYDITSRD 85

Query: 74  SYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ENV KKW+ E+  +A   VPI+LVG K DL D +           ++T +GE L K +
Sbjct: 86  SFENV-KKWLEEILRHADENVPIVLVGNKCDLEDQRV----------VSTEEGEALAKEL 134

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G P ++E S+KT +NV+  F+   + +L+
Sbjct: 135 GLP-FMETSAKTNENVEEAFEELAREILK 162

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

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

 Score =  155 bits (394), Expect = 1e-48
 Identities = 69/168 (41%), Positives = 102/168 (60%), Gaps = 2/168 (1%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++  ++LG+  ++Y PTVF+N+  +  VDG  V L LWDTAGQE+Y RLRPLSY  A V 
Sbjct: 17  LLYVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVI 76

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
           ++ F++ +  S ENV  KWI E+R Y P VP+ILVG K DLR +     ++     +   
Sbjct: 77  LIGFAIDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQEAVAKGNYATDEFVPIQ 136

Query: 124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKK 171
           Q + + + IG+  Y+ECS+ T + V  VF+AA +  L   K  K++  
Sbjct: 137 QAKLVARAIGAKKYMECSALTGEGVDDVFEAATRAALLVRKSGKEEPG 184

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

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

 Score =  144 bits (365), Expect = 2e-44
 Identities = 59/144 (40%), Positives = 91/144 (63%), Gaps = 3/144 (2%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  VD   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 28  ENYVPTVFENYTASFEVDKQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 87

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++V KKW  E+R + P  P++LVG K DLR D     +  +   +P++  QG  L K I
Sbjct: 88  LDSVLKKWKGEVREFCPNTPVLLVGCKSDLRTDLSTLTELSNKRQIPVSHEQGRNLAKQI 147

Query: 133 GSPAYIECSSKTQQN-VKAVFDAA 155
           G+ AY+ECS+KT +N V+ VF+ A
Sbjct: 148 GAAAYVECSAKTSENSVRDVFEMA 171

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

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

 Score =  140 bits (354), Expect = 1e-42
 Identities = 68/166 (40%), Positives = 95/166 (57%), Gaps = 10/166 (6%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           Q Y PTVF+N+  ++ VDG  V L LWDTAGQE+++RLR LSY    V +L FS+ +  S
Sbjct: 27  QVYEPTVFENYIHDIFVDGLAVELSLWDTAGQEEFDRLRSLSYADTHVIMLCFSVDNPDS 86

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            ENV  KW+ E+RH+ PGV ++LV  K DLR+ +           I+  +G  + K I +
Sbjct: 87  LENVESKWLAEIRHHCPGVKLVLVALKCDLREPRNERDRGTHT--ISYEEGLAVAKRINA 144

Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL--QPPKQKKKKKKSHRACSI 178
             Y+ECS+K  + V   F  A +V L  +PP          RAC+I
Sbjct: 145 CRYLECSAKLNRGVNEAFTEAARVALNARPPHPHS------RACTI 184

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

 Score =  127 bits (322), Expect = 6e-38
 Identities = 53/146 (36%), Positives = 83/146 (56%), Gaps = 14/146 (9%)

Query: 14  KQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
            ++Y  T+  +F S  + VDG  V L +WDTAGQE +  +    YRGA   IL + + ++
Sbjct: 26  SENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSYYRGAHGAILVYDVTNR 85

Query: 73  ASYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            S+EN+  KW+ EL+ YAP  +PIILVG K DL D++Q          ++T + ++  K 
Sbjct: 86  ESFENL-DKWLNELKEYAPPNIPIILVGNKSDLEDERQ----------VSTEEAQQFAKE 134

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIK 157
            G   + E S+KT +NV   F++  +
Sbjct: 135 NGLL-FFETSAKTGENVDEAFESLAR 159

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

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

 Score =  114 bits (286), Expect = 2e-32
 Identities = 52/144 (36%), Positives = 85/144 (59%), Gaps = 3/144 (2%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 32  ENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 91

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPG--AVPITTAQGEELRKLI 132
            ++V KKW  E++ + P   ++LVG K DLR D    ++       P++  QG  + K I
Sbjct: 92  LDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQI 151

Query: 133 GSPAYIECSSKTQQN-VKAVFDAA 155
           G+  YIECS+   +N V+ +F  A
Sbjct: 152 GAATYIECSALQSENSVRDIFHVA 175

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

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

 Score =  111 bits (280), Expect = 1e-31
 Identities = 50/149 (33%), Positives = 80/149 (53%), Gaps = 14/149 (9%)

Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y  T+  +F    + VDG  V L +WDTAGQE +  +    YRGA   +L + + ++ 
Sbjct: 27  EQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRE 86

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+EN+ + W+ ELR YA P V I+LVG K DL + +Q          ++  + E   +  
Sbjct: 87  SFENL-ENWLKELREYASPNVVIMLVGNKSDLEEQRQ----------VSREEAEAFAEEH 135

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G P + E S+KT  NV+  F+   + +L+
Sbjct: 136 GLP-FFETSAKTNTNVEEAFEELAREILK 163

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  113 bits (283), Expect = 2e-31
 Identities = 57/169 (33%), Positives = 92/169 (54%), Gaps = 15/169 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N++A+  +D   + L +WDT+G   Y+ +RPL+Y  +D  ++ F +    +
Sbjct: 28  ESYVPTVFENYTASFEIDKHRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPET 87

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDD--------KQFFIDHPGAVPITTAQGE 126
            ++V KKW  E + + P   ++LVG KLD+R D        KQ  I      P+T  QG 
Sbjct: 88  LDSVLKKWQGETQEFCPNAKLVLVGCKLDMRTDLSTLRELSKQRLI------PVTHEQGS 141

Query: 127 ELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVVLQPPKQKKKKKKSHR 174
            L + +G+ AY+ECSS+  +N V+ VF       ++      K+  S R
Sbjct: 142 LLARQLGAVAYVECSSRMSENSVRDVFHVTTLASVRREHPSLKRSTSRR 190

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

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

 Score =  112 bits (282), Expect = 2e-31
 Identities = 50/173 (28%), Positives = 87/173 (50%), Gaps = 8/173 (4%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y PT+ +   A  +      + L LWDTAGQE+Y  LRP  YRGA+  ++ +    + 
Sbjct: 32  EGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRE 91

Query: 74  SYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQ----FFIDHPGAVPITTAQGEEL 128
           S + + ++W+ ELR  AP  VPI+LVG K+DL D++             V +     + +
Sbjct: 92  SSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAV 151

Query: 129 RKLIGSPAYIECSSK--TQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
              + +PA +E S+K  T  NV  +F   ++ +L+  ++   K +  +   + 
Sbjct: 152 LPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEIEKLVLKNELRQLDRLN 204

Length = 219

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

 Score =  109 bits (275), Expect = 7e-31
 Identities = 49/145 (33%), Positives = 85/145 (58%), Gaps = 14/145 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++Y PT+ D++   +VVDG T  L + DTAGQE+++ +R    R  D FIL +S+ S+ S
Sbjct: 26  EEYDPTIEDSYRKQIVVDGETYTLDILDTAGQEEFSAMRDQYIRNGDGFILVYSITSRES 85

Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +E +   ++ I  ++     VPI+LVG K DL +++Q          ++T +GE L +  
Sbjct: 86  FEEIKNIREQILRVKDKED-VPIVLVGNKCDLENERQ----------VSTEEGEALAEEW 134

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIK 157
           G P ++E S+KT  N+  +F+  ++
Sbjct: 135 GCP-FLETSAKTNINIDELFNTLVR 158

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score =  109 bits (274), Expect = 4e-30
 Identities = 53/163 (32%), Positives = 88/163 (53%), Gaps = 3/163 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N++A +  +   V L LWDT+G   Y+ +RPL Y  +D  +L F +     
Sbjct: 40  ETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEI 99

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
           +++  KKW  E+  Y P   I+L+G K DLR D    ++  +    PI+  QG  + K +
Sbjct: 100 FDSALKKWRAEILDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCAMAKQL 159

Query: 133 GSPAYIECSSKT-QQNVKAVFDAAIKVVLQPPKQKKKKKKSHR 174
           G+ AY+ECS+ T ++++ ++F  A  + +       KK     
Sbjct: 160 GAEAYLECSAFTSEKSIHSIFRTASLLCINKLSPLAKKSPVRS 202

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

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

 Score = 95.8 bits (239), Expect = 2e-25
 Identities = 42/131 (32%), Positives = 72/131 (54%), Gaps = 13/131 (9%)

Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
           F   V + G  ++L +WDTAGQE Y+ L P+ YR AD  IL + +    S++ V KKWI 
Sbjct: 38  FQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKV-KKWIK 96

Query: 85  ELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL+      + +++VG K+DL   +           ++ ++ EE  K +G+  + E S+K
Sbjct: 97  ELKQMRGNNISLVIVGNKIDLERQRV----------VSKSEAEEYAKSVGAK-HFETSAK 145

Query: 144 TQQNVKAVFDA 154
           T + ++ +F +
Sbjct: 146 TGKGIEELFLS 156

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

 Score = 93.8 bits (234), Expect = 8e-25
 Identities = 46/131 (35%), Positives = 69/131 (52%), Gaps = 13/131 (9%)

Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y  L P+ YRGA   I+ + + S+ S+E  AK W+ 
Sbjct: 39  LTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEK-AKSWVK 97

Query: 85  ELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL+ H  P + I L G K DL   +Q          ++T + +E     G   ++E S+K
Sbjct: 98  ELQEHGPPNIVIALAGNKADLESKRQ----------VSTEEAQEYADENG-LLFMETSAK 146

Query: 144 TQQNVKAVFDA 154
           T +NV  +F  
Sbjct: 147 TGENVNELFTE 157

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

 Score = 92.6 bits (231), Expect = 3e-24
 Identities = 44/140 (31%), Positives = 76/140 (54%), Gaps = 14/140 (10%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY PT+ D++   + +DG    L + DTAGQE+++ +R    R  + F+L +S+  + S
Sbjct: 27  DDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQS 86

Query: 75  YENVAK--KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +E + K  + I  ++     VPI+LVG K DL  ++           ++T +G+EL +  
Sbjct: 87  FEEIKKFREQILRVKDRD-DVPIVLVGNKCDLESERV----------VSTEEGKELARQW 135

Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K + NV   F
Sbjct: 136 GCP-FLETSAKERVNVDEAF 154

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

 Score = 92.1 bits (229), Expect = 4e-24
 Identities = 50/140 (35%), Positives = 69/140 (49%), Gaps = 15/140 (10%)

Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-S 74
           Y P    N+   V+  DG T    L DTAGQEDY+ +R L YR  +  +  F ++     
Sbjct: 31  YKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLD 90

Query: 75  YENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
            E + +K   E+ H+A  GVPIILVG K+DLRD K           + T       KL G
Sbjct: 91  VEEILEKQTKEIIHHAESGVPIILVGNKIDLRDAK-----------LKTHVAFLFAKLNG 139

Query: 134 SPAYIECSSKTQQNVKAVFD 153
            P  I  S++T +N+ + F 
Sbjct: 140 EP-IIPLSAETGKNIDSAFK 158

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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 93.0 bits (231), Expect = 4e-24
 Identities = 55/169 (32%), Positives = 88/169 (52%), Gaps = 15/169 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +Y PT+ D++    V+D  T  L + DTAGQE+Y+ +R    R    F+  +S+ S++S
Sbjct: 32  DEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSS 91

Query: 75  YENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E +A      LR      VP+ILVG K DL  ++Q          ++T +G+EL K  G
Sbjct: 92  FEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQ----------VSTGEGQELAKSFG 141

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVV---LQPPKQKKKKKKSHRACSIL 179
            P ++E S+K + NV   F   ++ +   L+     +K+KK    C IL
Sbjct: 142 IP-FLETSAKQRVNVDEAFYELVREIRKYLKEDMPSQKQKKKGGLCLIL 189

Length = 189

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

 Score = 92.2 bits (230), Expect = 4e-24
 Identities = 44/140 (31%), Positives = 78/140 (55%), Gaps = 14/140 (10%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +Y PT+ D++   + +DG    L + DTAGQE+++ +R    R  + F+L +S+  + S
Sbjct: 29  DEYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQS 88

Query: 75  YENVAK--KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +E +AK  + I  ++     VPI+LVG K DL +++           ++T +G+EL +  
Sbjct: 89  FEEIAKFREQILRVKDRDD-VPIVLVGNKCDLENERV----------VSTEEGKELARQW 137

Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K + NV   F
Sbjct: 138 GCP-FLETSAKERINVDEAF 156

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|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 92.3 bits (229), Expect = 8e-24
 Identities = 62/137 (45%), Positives = 78/137 (56%), Gaps = 12/137 (8%)

Query: 30  VVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHY 89
           VVDG +V+L LWDT G  D+++ R  +Y  +DV +L FS+ S  S  NV   W PE+RH+
Sbjct: 60  VVDGVSVSLRLWDTFG--DHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHF 117

Query: 90  APGVPIILVGTKLDLRD---DKQFFIDHPGAVPITTA------QGEELRKLIGSPAYIEC 140
            P VP+ILVG KLDLR    D+      P A PI  A       G  + K +G P Y E 
Sbjct: 118 CPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIP-YYET 176

Query: 141 SSKTQQNVKAVFDAAIK 157
           S  TQ  VK VFD AI+
Sbjct: 177 SVVTQFGVKDVFDNAIR 193

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature. Length = 195

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

 Score = 87.9 bits (218), Expect = 2e-22
 Identities = 49/139 (35%), Positives = 80/139 (57%), Gaps = 15/139 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ S+ S+
Sbjct: 29  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSF 88

Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL               ++T QG++L K  G
Sbjct: 89  EDIHTYREQIKRVKD-SDDVPMVLVGNKCDLAART-----------VSTRQGQDLAKSYG 136

Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 137 IP-YIETSAKTRQGVEEAF 154

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

 Score = 87.8 bits (218), Expect = 2e-22
 Identities = 46/139 (33%), Positives = 71/139 (51%), Gaps = 14/139 (10%)

Query: 16  DYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            Y+ T+  +F    + +DG TV L +WDTAGQE +  +    YRGA   I+ + +  + S
Sbjct: 30  SYISTIGVDFKIRTIELDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQES 89

Query: 75  YENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + NV K+W+ E+  YA   V  +LVG K DL D K           +   + +E    +G
Sbjct: 90  FNNV-KQWLQEIDRYASENVNKLLVGNKCDLTDKKV----------VDYTEAKEFADELG 138

Query: 134 SPAYIECSSKTQQNVKAVF 152
            P ++E S+K   NV+  F
Sbjct: 139 IP-FLETSAKNATNVEEAF 156

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

 Score = 85.0 bits (211), Expect = 2e-21
 Identities = 54/155 (34%), Positives = 78/155 (50%), Gaps = 21/155 (13%)

Query: 2   RFIYIICNYSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSY-RG 59
           RF+Y           Y  T+  D  S  + VD  TV L LWDTAGQE +  L P SY R 
Sbjct: 19  RFMYDTF-----DNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRSLIP-SYIRD 72

Query: 60  ADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII-LVGTKLDLRDDKQFFIDHPGAV 118
           + V ++ + + ++ S++N   KWI ++R       II LVG K DL D +Q         
Sbjct: 73  SSVAVVVYDITNRQSFDNT-DKWIDDVRDERGNDVIIVLVGNKTDLSDKRQ--------- 122

Query: 119 PITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
            ++T +GE+  K   +  +IE S+K   NVK +F 
Sbjct: 123 -VSTEEGEKKAKENNA-MFIETSAKAGHNVKQLFK 155

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

 Score = 84.8 bits (210), Expect = 2e-21
 Identities = 50/139 (35%), Positives = 73/139 (52%), Gaps = 12/139 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V L + DTAGQEDY  +R   +R  + F+L FS+    S
Sbjct: 27  EDYEPTKADSYRKKVVLDGEEVQLNILDTAGQEDYAAIRDNYFRSGEGFLLVFSITDMES 86

Query: 75  YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +  +A+     LR      VP++LVG K DL D +Q  ++          +   L +  G
Sbjct: 87  FTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKRQVSVE----------EAANLAEQWG 136

Query: 134 SPAYIECSSKTQQNVKAVF 152
              Y+E S+KT+ NV  VF
Sbjct: 137 VN-YVETSAKTRANVDKVF 154

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

 Score = 84.0 bits (208), Expect = 6e-21
 Identities = 38/125 (30%), Positives = 64/125 (51%), Gaps = 12/125 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + + G  V L +WDTAGQE +  +    YR A+  I+A+ +  ++S+E+V   WI E+  
Sbjct: 45  LEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESV-PHWIEEVEK 103

Query: 89  Y-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           Y A  V ++L+G K DL + ++          +   +   L +  G  A +E S+K   N
Sbjct: 104 YGASNVVLLLIGNKCDLEEQRE----------VLFEEACTLAEHYGILAVLETSAKESSN 153

Query: 148 VKAVF 152
           V+  F
Sbjct: 154 VEEAF 158

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

 Score = 84.1 bits (208), Expect = 1e-20
 Identities = 57/178 (32%), Positives = 89/178 (50%), Gaps = 26/178 (14%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D++   VVVDG    L + DTAGQE+Y  LR    R  + FIL +S+ S+++
Sbjct: 26  ETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRST 85

Query: 75  YENVAKKWIPELR---HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           +E V +      R     A  VPI++VG K D   +++          ++T +G  L + 
Sbjct: 86  FERVERFREQIQRVKDESAADVPIMIVGNKCDKVYERE----------VSTEEGAALARR 135

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIK----------VVLQPPKQKKKKKKSHRACSIL 179
           +G   +IE S+KT  NV+  F   ++               P +KK+KKK  R C I+
Sbjct: 136 LGC-EFIEASAKTNVNVERAFYTLVRALRQQRQGGQGPKGGPTKKKEKKK--RKCVIM 190

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

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

 Score = 81.7 bits (202), Expect = 4e-20
 Identities = 49/147 (33%), Positives = 76/147 (51%), Gaps = 14/147 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY PT+ D+++    +DG    L + DTAGQE+++ +R    R  + F+L FS+  + S
Sbjct: 29  TDYDPTIEDSYTKQCEIDGQWARLDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGS 88

Query: 75  YENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL-RKLI 132
           +E V K     LR       P+ILVG K DL   +Q          ++  +G+EL R+L 
Sbjct: 89  FEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRQ----------VSREEGQELARQL- 137

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVV 159
               YIE S+K + NV   F   ++V+
Sbjct: 138 -KIPYIETSAKDRVNVDKAFHDLVRVI 163

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

 Score = 80.4 bits (199), Expect = 1e-19
 Identities = 43/153 (28%), Positives = 74/153 (48%), Gaps = 18/153 (11%)

Query: 6   IICNYSLGK--QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADV 62
           ++  ++     +D   T+  +F    V VDG  V L +WDTAGQE +  L    YRGA  
Sbjct: 16  LLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQG 75

Query: 63  FILAFSLISKASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPI 120
            IL + +  + +++N+   W+ EL  Y+  P    +LVG K+D  +             +
Sbjct: 76  VILVYDVTRRDTFDNL-DTWLNELDTYSTNPDAVKMLVGNKIDKEN-----------REV 123

Query: 121 TTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
           T  +G++  +      +IE S+KT+  V+  F+
Sbjct: 124 TREEGQKFARKHNML-FIETSAKTRIGVQQAFE 155

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

 Score = 80.6 bits (199), Expect = 1e-19
 Identities = 49/148 (33%), Positives = 74/148 (50%), Gaps = 14/148 (9%)

Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           KQD   T+   F + VV V G +V L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 26  KQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 85

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            S+  +   W+ + R  A P + IILVG K DL DD++  +    A     AQ   L   
Sbjct: 86  ESFNALT-NWLTDARTLASPDIVIILVGNKKDLEDDRE--VTFLEAS--RFAQENGLL-- 138

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVV 159
                ++E S+ T +NV+  F    + +
Sbjct: 139 -----FLETSALTGENVEEAFLKCARSI 161

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

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

 Score = 80.0 bits (198), Expect = 2e-19
 Identities = 38/126 (30%), Positives = 64/126 (50%), Gaps = 13/126 (10%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPEL- 86
            + +DG  + L +WDTAGQE +  +    YRGA   IL + +  + S+EN+ K W+  + 
Sbjct: 44  TIELDGKKIKLQIWDTAGQERFRTITTSYYRGAMGIILVYDITDEKSFENI-KNWMRNID 102

Query: 87  RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            H +  V  +LVG K D+ + +           ++  +GE L +  G   ++E S+K   
Sbjct: 103 EHASEDVERMLVGNKCDMEEKRV----------VSKEEGEALAREYGIK-FLETSAKANI 151

Query: 147 NVKAVF 152
           NV+  F
Sbjct: 152 NVEEAF 157

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

 Score = 79.0 bits (195), Expect = 4e-19
 Identities = 39/154 (25%), Positives = 59/154 (38%), Gaps = 18/154 (11%)

Query: 9   NYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRP-----LSYRGADVF 63
                      T  D       +D   V L L DT G +++  L       L  RGAD+ 
Sbjct: 21  EVGEVSDVPGTTR-DPDVYVKELDKGKVKLVLVDTPGLDEFGGLGREELARLLLRGADLI 79

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
           +L      + S E+     +  LR    G+PIILVG K+DL +++           +   
Sbjct: 80  LLVVDSTDRESEEDAKLLILRRLR--KEGIPIILVGNKIDLLEER----------EVEEL 127

Query: 124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK 157
              E    I      E S+KT + V  +F+  I+
Sbjct: 128 LRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 161

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

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

 Score = 78.1 bits (193), Expect = 1e-18
 Identities = 51/168 (30%), Positives = 83/168 (49%), Gaps = 22/168 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y PT+ + FS  +   G   +L + DTAGQ++Y+ L      G   +IL +S+ S+ S+
Sbjct: 29  SYYPTIENTFSKIITYKGQEYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSF 88

Query: 76  ENVAKKWIPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E V   +   L       VPI+LVG K DL  ++Q          ++  +G++L +  G+
Sbjct: 89  EVVKVIYDKILDMLGKESVPIVLVGNKSDLHMERQ----------VSAEEGKKLAESWGA 138

Query: 135 PAYIECSSKTQQNVKAVFDAAI----KVVLQPPKQKKKKKKSHRACSI 178
            A++E S+K  +NV+  F+  I    KV    P  +K K      CS+
Sbjct: 139 -AFLESSAKENENVEEAFELLIEEIEKVENPLPPGQKSK------CSV 179

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

 Score = 77.7 bits (192), Expect = 1e-18
 Identities = 47/163 (28%), Positives = 77/163 (47%), Gaps = 20/163 (12%)

Query: 5   YIICNYSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           Y+   +S     Y  T+  D  +  V VD   V L +WDTAGQE +  L    YRGAD  
Sbjct: 20  YVNKKFS---NQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQSLGVAFYRGADCC 76

Query: 64  ILAFSLISKASYENVAKKWIPELRHYA----PG-VPIILVGTKLDLRDDKQFFIDHPGAV 118
           +L + + +  S+E++   W  E    A    P   P +++G K+DL + +Q         
Sbjct: 77  VLVYDVTNPKSFESL-DSWRDEFLIQASPRDPENFPFVVLGNKIDLEEKRQ--------- 126

Query: 119 PITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            ++T + ++  K  G+  Y E S+K   NV   F+   ++ L+
Sbjct: 127 -VSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALE 168

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

 Score = 77.1 bits (190), Expect = 3e-18
 Identities = 42/121 (34%), Positives = 61/121 (50%), Gaps = 12/121 (9%)

Query: 33  GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPG 92
              V L LWDTAGQE+++ +    YRGA   IL FS   + S+E + + W  ++      
Sbjct: 48  DEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAI-ESWKEKVEAECGD 106

Query: 93  VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           +P++LV TK+DL D          AV IT  + E L K +  P +   S K   NV  +F
Sbjct: 107 IPMVLVQTKIDLLDQ---------AV-ITNEEAEALAKRLQLPLF-RTSVKDDFNVTELF 155

Query: 153 D 153
           +
Sbjct: 156 E 156

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

 Score = 76.8 bits (190), Expect = 3e-18
 Identities = 43/126 (34%), Positives = 67/126 (53%), Gaps = 13/126 (10%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
            + +DG T+   +WDTAGQE Y  +    YRGA   +L + +  K+++ENV  +W+ ELR
Sbjct: 44  TIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKSTFENVE-RWLKELR 102

Query: 88  HYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR  +        AVP   A+    +  +   ++IE S+    
Sbjct: 103 DHADSNIVIMLVGNKSDLRHLR--------AVPTEEAKAFAEKNGL---SFIETSALDGT 151

Query: 147 NVKAVF 152
           NV+  F
Sbjct: 152 NVEEAF 157

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

 Score = 76.4 bits (188), Expect = 4e-18
 Identities = 41/145 (28%), Positives = 79/145 (54%), Gaps = 14/145 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D +   + VD S   L + DTAG E +  +R L  +    FI+ +SL+++ +
Sbjct: 28  EKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQT 87

Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++++   +  I  ++ Y   VPIILVG K+DL  +++          +++A+G  L +  
Sbjct: 88  FQDIKPMRDQIVRVKGYEK-VPIILVGNKVDLESERE----------VSSAEGRALAEEW 136

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIK 157
           G P ++E S+K++  V  +F   ++
Sbjct: 137 GCP-FMETSAKSKTMVNELFAEIVR 160

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

 Score = 75.3 bits (185), Expect = 1e-17
 Identities = 33/95 (34%), Positives = 47/95 (49%), Gaps = 6/95 (6%)

Query: 15  QDYVPTVFDNFSA-----NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
             Y P     ++      N   +G T+ +  WDTAGQE +  +    Y  A   IL F +
Sbjct: 23  DGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDV 82

Query: 70  ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDL 104
             K +Y+N+  KW  ELR Y P +P I+V  K+DL
Sbjct: 83  TRKITYKNL-SKWYEELREYRPEIPCIVVANKIDL 116

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

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

 Score = 76.3 bits (188), Expect = 1e-17
 Identities = 48/138 (34%), Positives = 72/138 (52%), Gaps = 16/138 (11%)

Query: 19  PTVFDNFSANVV--VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           PTV  +F + ++    G  + L LWDTAGQE +  +    YR +   +L F + ++ S+E
Sbjct: 33  PTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFE 92

Query: 77  NVAKKWIPELR-HYAPGVPI-ILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           +V   W+ E R H  P  P+ ILVG K DL   +Q          +T  + E+L K +G 
Sbjct: 93  HV-HDWLEEARSHIQPHRPVFILVGHKCDLESQRQ----------VTREEAEKLAKDLGM 141

Query: 135 PAYIECSSKTQQNVKAVF 152
             YIE S++T  NV+  F
Sbjct: 142 -KYIETSARTGDNVEEAF 158

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|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 76.1 bits (187), Expect = 1e-17
 Identities = 49/141 (34%), Positives = 66/141 (46%), Gaps = 17/141 (12%)

Query: 17  YVPTVFDNFSAN-VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           Y  T+   F A  +VV    V LG+WDTAG E Y  +  + YRGA   I+ + L   +S+
Sbjct: 30  YQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSF 89

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDL----RDDKQFFIDHPGAVPITTAQGEELRKL 131
           E   K W+ EL++      I L GTK DL    R  +Q        V     Q  +    
Sbjct: 90  ERA-KFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQ--------VDFHDVQ--DFADE 138

Query: 132 IGSPAYIECSSKTQQNVKAVF 152
           I +  + E SSKT QNV  +F
Sbjct: 139 IKAQHF-ETSSKTGQNVDELF 158

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

 Score = 75.0 bits (185), Expect = 2e-17
 Identities = 43/153 (28%), Positives = 77/153 (50%), Gaps = 20/153 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQED----YNRLRPLSYRGADVFILAFSLIS 71
           +Y P +   +S  V +DG  V+L + DT GQ+      +  R L  R AD F+L +S+  
Sbjct: 27  EYEPNLESLYSRQVTIDGEQVSLEIQDTPGQQQNEDPESLERSL--RWADGFVLVYSITD 84

Query: 72  KASYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
           ++S++ V+   + I E++     +P+ILVG K DL   +Q          ++T +G++L 
Sbjct: 85  RSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHSRQ----------VSTEEGQKLA 134

Query: 130 KLIGSPAYIECS-SKTQQNVKAVFDAAIKVVLQ 161
             +G   + E S ++    V+ VF    + V +
Sbjct: 135 LELGC-LFFEVSAAENYLEVQNVFHELCREVRR 166

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

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

 Score = 75.3 bits (185), Expect = 2e-17
 Identities = 45/130 (34%), Positives = 69/130 (53%), Gaps = 13/130 (10%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           V VDG  V L +WDTAGQE +  +    YR A   +L + + +K+S++N+ + W+ E+  
Sbjct: 43  VTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNI-RAWLTEILE 101

Query: 89  YAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           YA   V I+L+G K D+  ++           +    GE L K  G P ++E S+KT  N
Sbjct: 102 YAQSDVVIMLLGNKADMSGERV----------VKREDGERLAKEYGVP-FMETSAKTGLN 150

Query: 148 VKAVFDAAIK 157
           V+  F A  K
Sbjct: 151 VELAFTAVAK 160

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 74.4 bits (183), Expect = 3e-17
 Identities = 44/150 (29%), Positives = 74/150 (49%), Gaps = 21/150 (14%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           Y PT+ D++   V +DG   +L + DTAG E +  +R L  +    F+L +S+ S+AS  
Sbjct: 30  YDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLN 89

Query: 77  NVAKKWIPELRHY------APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK 130
            +      ELR        +  VP++LVG K DL DD+Q          ++   G  L +
Sbjct: 90  ELG-----ELREQVLRIKDSDNVPMVLVGNKADLEDDRQ----------VSREDGVSLSQ 134

Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             G+  + E S++ + NV  VF   ++ ++
Sbjct: 135 QWGNVPFYETSARKRTNVDEVFIDLVRQII 164

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

 Score = 74.1 bits (182), Expect = 5e-17
 Identities = 43/131 (32%), Positives = 67/131 (51%), Gaps = 14/131 (10%)

Query: 33  GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH--YA 90
              V+L LWDTAGQE +  L    +R A  F+L F L S+ S+ NV + W+ +L+   Y 
Sbjct: 60  AFRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNV-RNWMSQLQAHAYC 118

Query: 91  PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA 150
               I+L+G K DL D ++          ++  Q  EL    G P Y E S+ T QNV+ 
Sbjct: 119 ENPDIVLIGNKADLPDQRE----------VSERQARELADKYGIP-YFETSAATGQNVEK 167

Query: 151 VFDAAIKVVLQ 161
             +  + ++++
Sbjct: 168 AVETLLDLIMK 178

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

 Score = 73.8 bits (181), Expect = 7e-17
 Identities = 43/137 (31%), Positives = 71/137 (51%), Gaps = 17/137 (12%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG  V L +WDTAGQE +  LR   YRG+D  +L FS+    S++N++  W  E  
Sbjct: 46  DLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLS-NWKKEFI 104

Query: 88  HYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           +YA        P +++G K+D+ + +           ++T + +   +  G   Y E S+
Sbjct: 105 YYADVKEPESFPFVILGNKIDIPERQ-----------VSTEEAQAWCRDNGDYPYFETSA 153

Query: 143 KTQQNVKAVFDAAIKVV 159
           K   NV A F+ A++ V
Sbjct: 154 KDATNVAAAFEEAVRRV 170

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

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

 Score = 74.3 bits (182), Expect = 7e-17
 Identities = 44/152 (28%), Positives = 77/152 (50%), Gaps = 15/152 (9%)

Query: 15  QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +D  PT+  +F    + V G  + L +WDTAGQE +  L    YR A   IL + +  + 
Sbjct: 40  EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRE 99

Query: 74  SYENVAKKWIPELRHYAPGVPII--LVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           ++ N++  W  E+  Y+     +  LVG K+D   ++           ++  +G  L K 
Sbjct: 100 TFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERD----------VSREEGMALAKE 149

Query: 132 IGSPAYIECSSKTQQNVKAVFDA-AIKVVLQP 162
            G   ++ECS+KT++NV+  F+  A+K++  P
Sbjct: 150 HGC-LFLECSAKTRENVEQCFEELALKIMEVP 180

Length = 211

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

 Score = 72.8 bits (179), Expect = 1e-16
 Identities = 40/105 (38%), Positives = 53/105 (50%), Gaps = 7/105 (6%)

Query: 58  RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGA 117
           R A+V  L +S+   ++ E +  KW+P +R     VPIILVG K DLRD           
Sbjct: 71  RKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQAGLEEEM 130

Query: 118 VPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP 162
           +PI      E R++      +ECS+KT  NV  VF  A K VL P
Sbjct: 131 LPIM----NEFREIE---TCVECSAKTLINVSEVFYYAQKAVLHP 168

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

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

 Score = 71.9 bits (176), Expect = 2e-16
 Identities = 46/132 (34%), Positives = 68/132 (51%), Gaps = 13/132 (9%)

Query: 31  VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA 90
           VDG  V + +WDTAGQE Y  +    YR A    L + + S+ SY+++  KW+ ++  YA
Sbjct: 44  VDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIM-KWVSDVDEYA 102

Query: 91  P-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK 149
           P GV  IL+G K D    +Q          +   QG +L K  G   + E S+ T +N+K
Sbjct: 103 PEGVQKILIGNKADEEQKRQ----------VGDEQGNKLAKEYGMD-FFETSACTNKNIK 151

Query: 150 AVFDAAIKVVLQ 161
             F    ++VLQ
Sbjct: 152 ESFTRLTELVLQ 163

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

 Score = 71.5 bits (175), Expect = 4e-16
 Identities = 50/174 (28%), Positives = 82/174 (47%), Gaps = 27/174 (15%)

Query: 1   MRFIYIICNYSLGKQDY-------------VPTVFDNFSANVVVDGST-VNLGLWDTAGQ 46
           M  + II N S+GK  +             V TV  +F    V      + L +WDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 47  EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLR 105
           E Y  +    YRGA  FIL + + ++ S+ N  + W  +++ Y+     +ILVG K D+ 
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESF-NAVQDWSTQIKTYSWDNAQVILVGNKCDME 119

Query: 106 DDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
           D++           ++  +G +L   +G   + E S+K   NVK VF+  + ++
Sbjct: 120 DERV----------VSAERGRQLADQLGF-EFFEASAKENINVKQVFERLVDII 162

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

 Score = 70.5 bits (173), Expect = 9e-16
 Identities = 37/142 (26%), Positives = 70/142 (49%), Gaps = 20/142 (14%)

Query: 25  FSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI 83
           F A ++ +DG  + L +WDTAGQE +  +    YRGA   +L + +  + ++ ++   W+
Sbjct: 41  FGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLT-SWL 99

Query: 84  PELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK---LIGSPAYIE 139
            + R ++   + I+L+G K DL   ++          ++  +GE   +   LI    ++E
Sbjct: 100 EDARQHSNSNMTIMLIGNKCDLESRRE----------VSYEEGEAFAREHGLI----FME 145

Query: 140 CSSKTQQNVKAVFDAAIKVVLQ 161
            S+KT  NV+  F    K +  
Sbjct: 146 TSAKTASNVEEAFINTAKEIYD 167

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

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

 Score = 68.3 bits (167), Expect = 5e-15
 Identities = 41/143 (28%), Positives = 75/143 (52%), Gaps = 14/143 (9%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           Y PT+ D++   V VDG    L + DTAG E +  +R L  +    F+L +S+ +++++ 
Sbjct: 30  YDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFN 89

Query: 77  NVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           ++   ++ I  ++     VP+ILVG K DL D++           +   QG+ L +  G 
Sbjct: 90  DLQDLREQILRVKDTE-DVPMILVGNKCDLEDERV----------VGKEQGQNLARQWGC 138

Query: 135 PAYIECSSKTQQNVKAVFDAAIK 157
            A++E S+K + NV  +F   ++
Sbjct: 139 -AFLETSAKAKINVNEIFYDLVR 160

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 68.8 bits (168), Expect = 8e-15
 Identities = 40/134 (29%), Positives = 69/134 (51%), Gaps = 13/134 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + +D   + L +WDTAGQE +  +    YRGA   +L + +  + ++ ++A  W+ + R 
Sbjct: 48  ITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLA-SWLEDARQ 106

Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           +A   + I+L+G K DL         H  AV  +T +GE+  K  G   ++E S+KT QN
Sbjct: 107 HANANMTIMLIGNKCDLA--------HRRAV--STEEGEQFAKEHGL-IFMEASAKTAQN 155

Query: 148 VKAVFDAAIKVVLQ 161
           V+  F      + +
Sbjct: 156 VEEAFIKTAAKIYK 169

Length = 210

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

 Score = 67.6 bits (165), Expect = 1e-14
 Identities = 38/138 (27%), Positives = 72/138 (52%), Gaps = 13/138 (9%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           Y PT+ D++   + VD     L + DTAG E +  +R L  +    F L +S+ ++ S+ 
Sbjct: 30  YDPTIEDSYRKQIEVDCQQCMLEILDTAGTEQFTAMRDLYIKNGQGFALVYSITAQQSFN 89

Query: 77  NVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           ++   ++ I  ++     VP+ILVG K DL D++           ++  +G+ L +  G+
Sbjct: 90  DLQDLREQILRVKDTED-VPMILVGNKCDLEDERV----------VSKEEGQNLARQWGN 138

Query: 135 PAYIECSSKTQQNVKAVF 152
             ++E S+K++ NV  +F
Sbjct: 139 CPFLETSAKSKINVDEIF 156

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

 Score = 67.6 bits (165), Expect = 1e-14
 Identities = 47/144 (32%), Positives = 67/144 (46%), Gaps = 22/144 (15%)

Query: 21  VFD-NFSANVVVD---------GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI 70
           VFD N+ A + VD         G   +L LWDTAGQE +  +    YRGA   I+ F L 
Sbjct: 24  VFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLT 83

Query: 71  SKASYENVAKKWIPE-LRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
             AS E+  ++W+ + L+   P  V + LVGTK DL    Q+ +    A+ +      E 
Sbjct: 84  DVASLEH-TRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAREMKAE- 141

Query: 129 RKLIGSPAYIECSSKTQQNVKAVF 152
                   Y   S+ T +NV+  F
Sbjct: 142 --------YWAVSALTGENVRDFF 157

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

 Score = 66.5 bits (162), Expect = 5e-14
 Identities = 45/156 (28%), Positives = 73/156 (46%), Gaps = 15/156 (9%)

Query: 26  SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPE 85
           +  +++DG  V L LWDT+GQ  +  +     RGA   IL + + ++ S++ +  +WI E
Sbjct: 45  TTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGI-DRWIKE 103

Query: 86  LRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQ 145
           +  +APGVP ILVG +L L   +Q          + T Q +   +  G   + E S    
Sbjct: 104 IDEHAPGVPKILVGNRLHLAFKRQ----------VATEQAQAYAERNGM-TFFEVSPLCN 152

Query: 146 QNVKAVFDAAIKVVLQ---PPKQKKKKKKSHRACSI 178
            N+   F    ++VL     P Q   +  S  +C I
Sbjct: 153 FNITESFTELARIVLMRHGRPPQSPPQNCSRNSCKI 188

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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 66.6 bits (162), Expect = 5e-14
 Identities = 40/125 (32%), Positives = 63/125 (50%), Gaps = 12/125 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           V + G  + L +WDTAGQE +N +    YR A   IL + +  K +++++  KW+  +  
Sbjct: 42  VELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLP-KWMKMIDK 100

Query: 89  YAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           YA     ++LVG KLD   D++          IT  QGE+  + I    + E S+K   N
Sbjct: 101 YASEDAELLLVGNKLDCETDRE----------ITRQQGEKFAQQITGMRFCEASAKDNFN 150

Query: 148 VKAVF 152
           V  +F
Sbjct: 151 VDEIF 155

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

 Score = 63.0 bits (153), Expect = 7e-13
 Identities = 37/125 (29%), Positives = 62/125 (49%), Gaps = 13/125 (10%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           V + G  + L +WDTAGQE +  +    YR A+  IL + +  + S+  +  +W+ E+  
Sbjct: 49  VEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLP-EWLREIEQ 107

Query: 89  YAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           YA   V  ILVG K+DL + ++          ++  + EE         Y+E S+K   N
Sbjct: 108 YANNKVITILVGNKIDLAERRE----------VSQQRAEEFSD-AQDMYYLETSAKESDN 156

Query: 148 VKAVF 152
           V+ +F
Sbjct: 157 VEKLF 161

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 63.0 bits (153), Expect = 1e-12
 Identities = 37/123 (30%), Positives = 64/123 (52%), Gaps = 13/123 (10%)

Query: 31  VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA 90
           V+G TV   +WDTAGQE Y  +    YRGA   +L + +  + +++NV ++W+ ELR +A
Sbjct: 56  VEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-QRWLRELRDHA 114

Query: 91  -PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK 149
              + I++ G K DL        +H  +V     Q    ++ +   +++E S+    NV+
Sbjct: 115 DSNIVIMMAGNKSDL--------NHLRSVAEEDGQALAEKEGL---SFLETSALEATNVE 163

Query: 150 AVF 152
             F
Sbjct: 164 KAF 166

Length = 216

>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 = 62.2 bits (151), Expect = 1e-12
 Identities = 35/145 (24%), Positives = 67/145 (46%), Gaps = 14/145 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
             + PT+ D +     +D     L + DTAGQ ++  +R    R  + FI+ +S+  + S
Sbjct: 29  DYHDPTIEDAYKTQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHS 88

Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++  +  K+ I  +R     +P++LVG K+DL   +Q          +TT +G  L +  
Sbjct: 89  FQEASEFKELITRVRL-TEDIPLVLVGNKVDLEQQRQ----------VTTEEGRNLAREF 137

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIK 157
             P + E S+  +  +   F   ++
Sbjct: 138 NCP-FFETSAALRFYIDDAFHGLVR 161

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

 Score = 62.0 bits (151), Expect = 3e-12
 Identities = 38/146 (26%), Positives = 66/146 (45%), Gaps = 14/146 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR- 87
           V VDG    L ++D   QED   L     +  D +++ +S+  ++S+E  A +   +LR 
Sbjct: 42  VSVDGEEATLVVYDHWEQEDGMWLEDSCMQVGDAYVIVYSVTDRSSFE-KASELRIQLRR 100

Query: 88  -HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
              A  +PIILVG K DL   ++          ++  +G     +     +IE S+  Q 
Sbjct: 101 ARQAEDIPIILVGNKSDLVRSRE----------VSVQEGRACAVVF-DCKFIETSAALQH 149

Query: 147 NVKAVFDAAIKVVLQPPKQKKKKKKS 172
           NV  +F+  ++ V      K+K  + 
Sbjct: 150 NVDELFEGIVRQVRLRRDSKEKNTRR 175

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

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

 Score = 60.6 bits (147), Expect = 4e-12
 Identities = 30/124 (24%), Positives = 59/124 (47%), Gaps = 14/124 (11%)

Query: 32  DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP 91
              +V L ++D+AGQE ++ +    +    V  + + + ++ S+ N + +WI  +R ++ 
Sbjct: 49  TSDSVELFIFDSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCS-RWINRVRTHSH 107

Query: 92  GV--PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK 149
           G+  P +LVG K DL D ++          +  AQ + L     +  + E S+K     +
Sbjct: 108 GLHTPGVLVGNKCDLTDRRE----------VDAAQAQAL-AQANTLKFYETSAKEGVGYE 156

Query: 150 AVFD 153
           A F 
Sbjct: 157 APFL 160

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

 Score = 60.8 bits (148), Expect = 4e-12
 Identities = 31/100 (31%), Positives = 47/100 (47%), Gaps = 14/100 (14%)

Query: 16  DYVPTVFDNFSANVVV-------DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFS 68
            YV T+       V V       +   +   +WDTAGQE +  LR   Y      I+ F 
Sbjct: 28  KYVATL------GVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFD 81

Query: 69  LISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK 108
           + S+ +Y+NV   W  +L      +PI+L G K+D++D K
Sbjct: 82  VTSRVTYKNVP-NWHRDLVRVCENIPIVLCGNKVDIKDRK 120

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

 Score = 61.0 bits (148), Expect = 6e-12
 Identities = 44/159 (27%), Positives = 75/159 (47%), Gaps = 18/159 (11%)

Query: 17  YVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           Y+ T+  +F    V ++G  V L +WDTAGQE +  +    YRG    I+ + + +  S+
Sbjct: 35  YITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESF 94

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
            NV K+W+ E+      V  +LVG K D  D ++  ++   A       G  L       
Sbjct: 95  VNV-KRWLQEIEQNCDDVCKVLVGNKND--DPERKVVETEDAYKFAGQMGISL------- 144

Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL-----QPPKQKKKK 169
              E S+K   NV+ +F+   ++VL        KQ++++
Sbjct: 145 --FETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQ 181

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

 Score = 59.8 bits (145), Expect = 9e-12
 Identities = 37/134 (27%), Positives = 67/134 (50%), Gaps = 13/134 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + V+G  + L +WDTAGQE +  +    YRGA   ++ + +  +++Y +++  W+ + R+
Sbjct: 44  IEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLS-SWLTDARN 102

Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
              P   I L+G K DL   +   + +  A       G     L+    ++ECS+KT +N
Sbjct: 103 LTNPNTVIFLIGNKADLEAQRD--VTYEEAKQFADENG-----LL----FLECSAKTGEN 151

Query: 148 VKAVFDAAIKVVLQ 161
           V+  F    K + Q
Sbjct: 152 VEDAFLETAKKIYQ 165

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

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

 Score = 59.4 bits (144), Expect = 1e-11
 Identities = 29/84 (34%), Positives = 45/84 (53%), Gaps = 4/84 (4%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           V +DG  + + LWDTAGQE + + +    YR     +  + + + AS+ ++   WI E  
Sbjct: 44  VEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLP-SWIEECE 102

Query: 88  HYA--PGVPIILVGTKLDLRDDKQ 109
            ++    VP ILVG K DLR+  Q
Sbjct: 103 QHSLPNEVPRILVGNKCDLREQIQ 126

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|219856 pfam08477, Miro, Miro-like protein

 Score = 56.6 bits (137), Expect = 5e-11
 Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA--KKWIPEL 86
           + VDG T  L +WD  G+E+      +  + AD  +L + L  + S   V+    W+P L
Sbjct: 41  LEVDGDTGLLNIWDFGGREELKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNL 100

Query: 87  RHYAPGVPIILVGTKL 102
           R     +P+ILVG KL
Sbjct: 101 RKLGGKIPVILVGNKL 116

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

 Score = 58.2 bits (141), Expect = 8e-11
 Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 31  VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA 90
            +   +   +WDTAGQE +  LR   Y      I+ F + S+ +Y+NV   W  ++    
Sbjct: 53  TNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVP-NWHRDIVRVC 111

Query: 91  PGVPIILVGTKLDLRDDK 108
             +PI+LVG K+D++D +
Sbjct: 112 ENIPIVLVGNKVDVKDRQ 129

Length = 215

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

 Score = 58.4 bits (141), Expect = 8e-11
 Identities = 36/153 (23%), Positives = 61/153 (39%), Gaps = 22/153 (14%)

Query: 37  NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII 96
           N+ +WDTAG+E ++ L  +  RGA   IL + + +  S E +  +++             
Sbjct: 45  NISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFA 104

Query: 97  LVGTKLDLRDDKQFFIDHPGAVPITT-------------AQGEELRKLIG-----SPA-- 136
           +VG KLDL ++         A    +             A  + + K        SPA  
Sbjct: 105 VVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAE 164

Query: 137 --YIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
               E S+KT  NV  +F+    +VL     ++
Sbjct: 165 KMCFETSAKTGYNVDELFEYLFNLVLPLILAQR 197

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 57.1 bits (137), Expect = 1e-10
 Identities = 44/145 (30%), Positives = 68/145 (46%), Gaps = 14/145 (9%)

Query: 10  YSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFS 68
           Y     +Y  T+  D  S  + +D   V L LWDTAGQE +  L P   R +   I+ + 
Sbjct: 2   YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYD 61

Query: 69  LISKASYENVAKKWIPE-LRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE 127
           + ++ S+EN   KWI + L      V I LVG K DL D ++          +T  +G +
Sbjct: 62  ITNRQSFENTT-KWIQDILNERGKDVIIALVGNKTDLGDLRK----------VTYEEGMQ 110

Query: 128 LRKLIGSPAYIECSSKTQQNVKAVF 152
             +   +  + E S+K   N+K +F
Sbjct: 111 KAQEYNT-MFHETSAKAGHNIKVLF 134

Length = 176

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

 Score = 56.3 bits (136), Expect = 6e-10
 Identities = 44/150 (29%), Positives = 68/150 (45%), Gaps = 25/150 (16%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           Y PT+ D       + G    L + DT+G   +  +R LS    DVFIL FSL ++ S+E
Sbjct: 29  YTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFE 88

Query: 77  NVA--KKWIPELRHYA-------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE 127
            V   ++ I E +            +P+++ G K D         D P  V     Q +E
Sbjct: 89  EVCRLREQILETKSCLKNKTKENVKIPMVICGNKADR--------DFPREV-----QRDE 135

Query: 128 LRKLIG---SPAYIECSSKTQQNVKAVFDA 154
           + +L+G   + AY E S+K   N+  +F A
Sbjct: 136 VEQLVGGDENCAYFEVSAKKNSNLDEMFRA 165

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

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

 Score = 55.5 bits (134), Expect = 7e-10
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +    WDTAGQE +  LR   Y      I+ F + ++ +Y+NV   W  +L      +PI
Sbjct: 62  IRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVP-TWHRDLCRVCENIPI 120

Query: 96  ILVGTKLDLRDDK 108
           +L G K+D+++ +
Sbjct: 121 VLCGNKVDVKNRQ 133

Length = 219

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

 Score = 53.3 bits (128), Expect = 2e-09
 Identities = 38/142 (26%), Positives = 71/142 (50%), Gaps = 14/142 (9%)

Query: 14  KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++ Y+PT+ D +   +    S   L + DT G   +  ++ LS      FIL +S+ SK 
Sbjct: 27  RESYIPTIEDTYRQVISCSKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSKQ 86

Query: 74  SYENVAKKW--IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK 130
           S E +   +  I E++ +    +PI+LVG K D    ++          +++++G  L +
Sbjct: 87  SLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESPSRE----------VSSSEGAALAR 136

Query: 131 LIGSPAYIECSSKTQQNVKAVF 152
              + A++E S+KT  NV+ +F
Sbjct: 137 -TWNCAFMETSAKTNHNVQELF 157

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

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

 Score = 52.4 bits (126), Expect = 7e-09
 Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 14/148 (9%)

Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++Y+ T+  NF    + + G+ +   +WD  GQ ++  + PL  + A   +  F L  K+
Sbjct: 27  EEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCKDAVAILFMFDLTRKS 86

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT-TAQGEELRKLI 132
           +  ++ K+W  + R +      ILVGTK DL      F D P       T Q  +  K +
Sbjct: 87  TLNSI-KEWYRQARGFNKTAIPILVGTKYDL------FADLPPEEQEEITKQARKYAKAM 139

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
            +P  I CS+    NV+ +F    K VL
Sbjct: 140 KAP-LIFCSTSHSINVQKIF----KFVL 162

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

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

 Score = 52.1 bits (125), Expect = 9e-09
 Identities = 38/138 (27%), Positives = 65/138 (47%), Gaps = 13/138 (9%)

Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           +  TV +  S    V G  V + + DT+G   +  +R LS +  D F L +S+    S+E
Sbjct: 28  HRRTVEELHSKEYEVAGVKVTIDILDTSGSYSFPAMRKLSIQNGDAFALVYSVDDPESFE 87

Query: 77  NVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            V   ++ I E++     VPI++VG K+D   ++Q          +  A      +L  +
Sbjct: 88  EVKRLREEILEVKEDK-FVPIVVVGNKIDSLAERQ----------VEAADALSTVELDWN 136

Query: 135 PAYIECSSKTQQNVKAVF 152
             ++E S+K  +NV  VF
Sbjct: 137 NGFVEASAKDNENVTEVF 154

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

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

 Score = 51.9 bits (124), Expect = 1e-08
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 1/73 (1%)

Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y      I+ F + ++ +Y+NV   W  +L      +PI
Sbjct: 44  IRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVP-NWHRDLVRVCENIPI 102

Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 103 VLCGNKVDVKDRK 115

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

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

 Score = 51.5 bits (124), Expect = 1e-08
 Identities = 39/153 (25%), Positives = 67/153 (43%), Gaps = 17/153 (11%)

Query: 15  QDYVPTVFDNFSANVVV--DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           Q Y  T+  +F+  V+     + V L LWD AGQE +  +  + Y+GA   I+ F +   
Sbjct: 27  QHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYKGAVGAIIVFDVTRP 86

Query: 73  ASYENVAKKWIPELR---HYAPG--VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE 127
           +++E V  KW  +L        G  +P +L+  K DL+            +     Q ++
Sbjct: 87  STFEAV-LKWKADLDSKVTLPNGEPIPALLLANKCDLK---------KERLAKDPEQMDQ 136

Query: 128 LRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             K  G   + E S+K   N++      +K +L
Sbjct: 137 FCKENGFIGWFETSAKENINIEEAMRFLVKNIL 169

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

 Score = 45.8 bits (109), Expect = 1e-06
 Identities = 27/113 (23%), Positives = 46/113 (40%), Gaps = 13/113 (11%)

Query: 32  DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP 91
           +   + L +WD  GQE Y+           +++L F L +      V   W+ +++ +  
Sbjct: 47  ERKKIRLNVWDFGGQEIYHATHQFFLTSRSLYLLVFDLRTGDEVSRV-PYWLRQIKAFGG 105

Query: 92  GVPIILVGTKLDLRDD---------KQFFIDHPGAVPITTAQG---EELRKLI 132
             P+ILVGT +D   D         K+F         ++   G    EL+K I
Sbjct: 106 VSPVILVGTHIDESCDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAI 158

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

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

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 28/145 (19%), Positives = 56/145 (38%), Gaps = 19/145 (13%)

Query: 17  YVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           Y+PT+  D     V V    V +  +D +G  +Y  +R   Y+     +L + +  + S+
Sbjct: 29  YLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSF 88

Query: 76  ENVAKKWIPELRHYAPG------VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
           E +   W+ E++           + +++   K          ID      ++  +G    
Sbjct: 89  EAL-DSWLKEMKQEGGPHGNMENIVVVVCANK----------IDLTKHRAVSEDEGRLWA 137

Query: 130 KLIGSPAYIECSSKTQQNVKAVFDA 154
           +  G   Y E S+ T + V  +F  
Sbjct: 138 ESKGF-KYFETSACTGEGVNEMFQT 161

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|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 41.7 bits (98), Expect = 4e-05
 Identities = 40/138 (28%), Positives = 60/138 (43%), Gaps = 19/138 (13%)

Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRG-ADVFILAFSLISKASYENVAKKWI 83
           F   V+VDG +  L + D  G  D        + G  D  I  FSL  +AS++ V  +  
Sbjct: 36  FKKEVLVDGQSHLLLIRDEGGAPD------AQFAGWVDAVIFVFSLEDEASFQTV-YRLY 88

Query: 84  PELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
            +L  Y     +P+ILVGT+     D    I       I  A+  +L   +   +Y E  
Sbjct: 89  HQLSSYRNISEIPLILVGTQ-----DA---ISASNPRVIDDARARQLCADMKRCSYYETC 140

Query: 142 SKTQQNVKAVF-DAAIKV 158
           +    NV+ VF +AA K+
Sbjct: 141 ATYGLNVERVFQEAAQKI 158

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. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	179
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.98
PTZ00099	176	rab6; Provisional	99.98
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.97
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.97
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.97
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.97
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.97
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.97
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.97
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.97
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.97
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.97
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.96
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.96
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.96
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.96
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.96
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.96
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.96
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.96
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.96
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.96
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.96
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.96
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.96
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.96
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.96
PLN03110	216	Rab GTPase; Provisional	99.96
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.96
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.96
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.96
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.96
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.96
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.96
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.95
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.95
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.95
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.95
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.95
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.95
PLN03108	210	Rab family protein; Provisional	99.95
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.95
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.94
PLN03118	211	Rab family protein; Provisional	99.94
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.94
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.94
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.94
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.94
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.94
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.94
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.94
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.94
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.93
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.93
PLN00223	181	ADP-ribosylation factor; Provisional	99.93
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.93
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.93
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.93
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.93
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.93
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.93
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.92
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.92
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.92
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.92
PTZ00133	182	ADP-ribosylation factor; Provisional	99.92
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.92
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.91
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.9
KOG1673	205	consensus Ras GTPases [General function prediction	99.9
PLN00023	334	GTP-binding protein; Provisional	99.9
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.9
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.89
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.89
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.88
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.88
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.87
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.87
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.87
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.86
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.86
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.85
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.85
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.85
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.84
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.83
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.83
COG1100	219	GTPase SAR1 and related small G proteins [General	99.83
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.82
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.81
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.78
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.78
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.77
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.76
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.76
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.74
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.74
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.73
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.73
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.73
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.73
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.71
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.7
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.7
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.7
PRK12299	335	obgE GTPase CgtA; Reviewed	99.67
PRK03003	472	GTP-binding protein Der; Reviewed	99.67
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.67
PRK04213	201	GTP-binding protein; Provisional	99.66
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.65
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.65
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.64
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.64
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.64
PRK03003	472	GTP-binding protein Der; Reviewed	99.63
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.62
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.62
PRK15494	339	era GTPase Era; Provisional	99.62
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.61
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.61
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.61
CHL00189	742	infB translation initiation factor 2; Provisional	99.58
cd00881	189	GTP_translation_factor GTP translation factor fami	99.58
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.58
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.57
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.57
PRK05306	787	infB translation initiation factor IF-2; Validated	99.57
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.57
PRK00093	435	GTP-binding protein Der; Reviewed	99.56
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.55
PRK05433	600	GTP-binding protein LepA; Provisional	99.55
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.55
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.54
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.53
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.52
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.52
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.51
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.51
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.5
PRK11058	426	GTPase HflX; Provisional	99.5
PRK12297	424	obgE GTPase CgtA; Reviewed	99.5
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.48
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.47
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.46
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.45
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.45
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.44
COG2229	187	Predicted GTPase [General function prediction only	99.44
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.43
PRK12296	500	obgE GTPase CgtA; Reviewed	99.42
PRK00093	435	GTP-binding protein Der; Reviewed	99.42
PRK10218	607	GTP-binding protein; Provisional	99.41
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.41
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.4
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.39
PRK00089	292	era GTPase Era; Reviewed	99.39
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.38
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.37
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.33
PRK12317	425	elongation factor 1-alpha; Reviewed	99.31
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.3
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.29
PRK00098	298	GTPase RsgA; Reviewed	99.29
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.29
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.27
PRK04004	586	translation initiation factor IF-2; Validated	99.27
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.26
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.25
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.25
PRK12298	390	obgE GTPase CgtA; Reviewed	99.24
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.22
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.21
PRK14845	1049	translation initiation factor IF-2; Provisional	99.21
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.2
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.17
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.16
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.15
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.15
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.14
PRK12289	352	GTPase RsgA; Reviewed	99.13
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.12
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.12
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.11
PRK12288	347	GTPase RsgA; Reviewed	99.1
COG1160	444	Predicted GTPases [General function prediction onl	99.09
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.06
PRK12736	394	elongation factor Tu; Reviewed	99.05
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.05
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.04
COG1160	444	Predicted GTPases [General function prediction onl	99.01
PRK09866	741	hypothetical protein; Provisional	98.99
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.99
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.97
PRK13351	687	elongation factor G; Reviewed	98.96
PRK12735	396	elongation factor Tu; Reviewed	98.95
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.94
PLN00043	447	elongation factor 1-alpha; Provisional	98.94
COG1159	298	Era GTPase [General function prediction only]	98.93
KOG1145	683	consensus Mitochondrial translation initiation fac	98.93
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.92
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.9
PRK13768	253	GTPase; Provisional	98.86
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.86
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.86
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.86
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.86
COG0486	454	ThdF Predicted GTPase [General function prediction	98.85
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	98.85
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.83
PRK12740	668	elongation factor G; Reviewed	98.83
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.81
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.78
COG2262	411	HflX GTPases [General function prediction only]	98.75
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.74
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.72
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.71
KOG0090	238	consensus Signal recognition particle receptor, be	98.7
CHL00071	409	tufA elongation factor Tu	98.7
PRK00049	396	elongation factor Tu; Reviewed	98.69
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.69
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.67
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.67
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.66
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.65
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.64
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.63
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.61
PLN03126	478	Elongation factor Tu; Provisional	98.61
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.6
PLN03127	447	Elongation factor Tu; Provisional	98.59
PTZ00141	446	elongation factor 1- alpha; Provisional	98.58
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.58
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.5
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.5
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.47
PRK13796	365	GTPase YqeH; Provisional	98.44
PRK01889	356	GTPase RsgA; Reviewed	98.41
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.38
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.36
COG1163	365	DRG Predicted GTPase [General function prediction	98.36
PRK12739	691	elongation factor G; Reviewed	98.36
COG0218	200	Predicted GTPase [General function prediction only	98.34
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.33
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.32
COG1084	346	Predicted GTPase [General function prediction only	98.31
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.29
COG0536	369	Obg Predicted GTPase [General function prediction	98.25
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	98.25
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.25
COG1162	301	Predicted GTPases [General function prediction onl	98.23
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.21
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.14
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.13
PRK00007	693	elongation factor G; Reviewed	98.08
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.0
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.0
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.99
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	97.94
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.91
PRK09602	396	translation-associated GTPase; Reviewed	97.91
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.9
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	97.88
COG3276	447	SelB Selenocysteine-specific translation elongatio	97.88
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.87
PTZ00416	836	elongation factor 2; Provisional	97.84
PRK07560	731	elongation factor EF-2; Reviewed	97.79
COG3596	296	Predicted GTPase [General function prediction only	97.78
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	97.78
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.76
KOG0461	522	consensus Selenocysteine-specific elongation facto	97.75
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.74
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.74
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	97.66
KOG0099	379	consensus G protein subunit Galphas, small G prote	97.62
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.52
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	97.51
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.5
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.46
KOG3887	347	consensus Predicted small GTPase involved in nucle	97.42
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.39
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	97.19
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.08
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.01
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	96.9
KOG1143	591	consensus Predicted translation elongation factor	96.85
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.78
COG0050	394	TufB GTPases - translation elongation factors [Tra	96.69
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.59
cd03110	179	Fer4_NifH_child This protein family's function is	96.57
KOG0460	449	consensus Mitochondrial translation elongation fac	96.49
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.46
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	96.36
KOG0465	721	consensus Mitochondrial elongation factor [Transla	96.36
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	96.27
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	96.25
KOG0467	887	consensus Translation elongation factor 2/ribosome	96.22
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.17
COG1161	322	Predicted GTPases [General function prediction onl	95.88
KOG0464	753	consensus Elongation factor G [Translation, riboso	95.82
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	95.58
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.25
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	95.16
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.76
KOG2484	435	consensus GTPase [General function prediction only	94.73
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	94.69
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	94.67
KOG0466	466	consensus Translation initiation factor 2, gamma s	94.44
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	94.22
KOG2423	572	consensus Nucleolar GTPase [General function predi	94.14
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	93.97
KOG4273	418	consensus Uncharacterized conserved protein [Funct	93.88
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	93.48
KOG2486	320	consensus Predicted GTPase [General function predi	93.41
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	93.29
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	93.09
PTZ00258	390	GTP-binding protein; Provisional	92.81
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	92.62
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	92.09
COG1149	284	MinD superfamily P-loop ATPase containing an inser	91.52
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	91.24
KOG3929	363	consensus Uncharacterized conserved protein [Funct	89.15
PHA02518	211	ParA-like protein; Provisional	88.75
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	88.06
TIGR00064	272	ftsY signal recognition particle-docking protein F	87.72
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	87.53
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	87.42
COG5019	373	CDC3 Septin family protein [Cell division and chro	85.67
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	85.35
cd03111	106	CpaE_like This protein family consists of proteins	84.92
PRK14974	336	cell division protein FtsY; Provisional	84.85
PRK10416	318	signal recognition particle-docking protein FtsY;	84.8
cd02036	179	MinD Bacterial cell division requires the formatio	81.83
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	81.53
KOG0410	410	consensus Predicted GTP binding protein [General f	80.54

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

Probab=100.00  E-value=6.7e-40  Score=230.22  Aligned_cols=148  Identities=33%  Similarity=0.614  Sum_probs=139.4

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      |+.||..+.|.+.|..|||+.|. +++.++|+.++++||||+|||||+++...||++|||+|+|||+++.+||+++ ..|
T Consensus        25 L~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v-~~W  103 (205)
T KOG0084|consen   25 LLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNV-KRW  103 (205)
T ss_pred             hhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhH-HHH
Confidence            67899999999999999997775 9999999999999999999999999999999999999999999999999999 899


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +.+++++. .++|.+|||||+|+.+...          ++.++++.++..++++.++|+||+++.||+++|..+...+.+
T Consensus       104 i~Ei~~~~~~~v~~lLVGNK~Dl~~~~~----------v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~  173 (205)
T KOG0084|consen  104 IQEIDRYASENVPKLLVGNKCDLTEKRV----------VSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQ  173 (205)
T ss_pred             HHHhhhhccCCCCeEEEeeccccHhhee----------cCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHH
Confidence            99999998 6889999999999987664          999999999999999559999999999999999999998865


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       174 ~  174 (205)
T KOG0084|consen  174 R  174 (205)
T ss_pred             h
Confidence            4

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

Probab=100.00  E-value=2.7e-38  Score=221.34  Aligned_cols=149  Identities=31%  Similarity=0.549  Sum_probs=138.4

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ||+.||+.|.|.+...||||..| .+++.+++..++++||||+|||+|.++.+.||++|+++|+|||+++.+||..+ ..
T Consensus        20 SlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~a-K~   98 (200)
T KOG0092|consen   20 SLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKA-KN   98 (200)
T ss_pred             hhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHH-HH
Confidence            68999999999999999999555 59999999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+++.. +++-|.|||||+|+.+.+          .+..+++..+++..|. .|+|+||++|.||+++|..|.+.+.
T Consensus        99 WvkeL~~~~~~~~vialvGNK~DL~~~R----------~V~~~ea~~yAe~~gl-l~~ETSAKTg~Nv~~if~~Ia~~lp  167 (200)
T KOG0092|consen   99 WVKELQRQASPNIVIALVGNKADLLERR----------EVEFEEAQAYAESQGL-LFFETSAKTGENVNEIFQAIAEKLP  167 (200)
T ss_pred             HHHHHHhhCCCCeEEEEecchhhhhhcc----------cccHHHHHHHHHhcCC-EEEEEecccccCHHHHHHHHHHhcc
Confidence            999999887 567788999999997754          4999999999999999 8999999999999999999999987


Q ss_pred             CCc
Q 030337          161 QPP  163 (179)
Q Consensus       161 ~~~  163 (179)
                      ...
T Consensus       168 ~~~  170 (200)
T KOG0092|consen  168 CSD  170 (200)
T ss_pred             Ccc
Confidence            644

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=1.7e-36  Score=220.33  Aligned_cols=172  Identities=49%  Similarity=0.850  Sum_probs=143.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+.+.|.++|.||+|+.+.+.+.++++.+.++||||+|+++|..+++.+++++|++|+|||++++.||+.+...|
T Consensus        18 sli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w   97 (191)
T cd01875          18 CLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKW   97 (191)
T ss_pred             HHHHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57899999999999999999888877888999999999999999999999999999999999999999999999995579


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....+++|++|||||.|+.+.....  ......+.++.+++..+++..+...++|+||++|.||+++|+++++.++
T Consensus        98 ~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~  177 (191)
T cd01875          98 HPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVL  177 (191)
T ss_pred             HHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHh
Confidence            88887766789999999999996532100  0001123467788999999998658999999999999999999999998


Q ss_pred             CCchhhhhccCCCCCcccC
Q 030337          161 QPPKQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~~~~~~~~~~c~~~  179 (179)
                      .+..  .+   ++.+|.||
T Consensus       178 ~~~~--~~---~~~~c~~~  191 (191)
T cd01875         178 NPTP--IK---DTKSCVLL  191 (191)
T ss_pred             cccc--cc---CCCCceeC
Confidence            7542  22   12259887

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

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

Probab=100.00  E-value=1.3e-36  Score=216.39  Aligned_cols=151  Identities=28%  Similarity=0.534  Sum_probs=140.3

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      .|+.||..+.|...+..|+|..| .+++.+++..+.++||||+|||+|+.+..+|+++|.++++|||+++..||+++ ..
T Consensus        27 ~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni-~~  105 (207)
T KOG0078|consen   27 CLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFENI-RN  105 (207)
T ss_pred             HhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHH-HH
Confidence            47899999999999999999655 49999999999999999999999999999999999999999999999999999 67


Q ss_pred             HHHHHhhcCC-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |++.++++.+ ++|++|||||+|+..++          +++.++++.+|.++|+ .|+|+||++|.||+++|..|++.++
T Consensus       106 W~~~I~e~a~~~v~~~LvGNK~D~~~~R----------~V~~e~ge~lA~e~G~-~F~EtSAk~~~NI~eaF~~La~~i~  174 (207)
T KOG0078|consen  106 WIKNIDEHASDDVVKILVGNKCDLEEKR----------QVSKERGEALAREYGI-KFFETSAKTNFNIEEAFLSLARDIL  174 (207)
T ss_pred             HHHHHHhhCCCCCcEEEeeccccccccc----------cccHHHHHHHHHHhCC-eEEEccccCCCCHHHHHHHHHHHHH
Confidence            9999999984 89999999999997644          5999999999999999 8999999999999999999999998


Q ss_pred             CCchh
Q 030337          161 QPPKQ  165 (179)
Q Consensus       161 ~~~~~  165 (179)
                      .+...
T Consensus       175 ~k~~~  179 (207)
T KOG0078|consen  175 QKLED  179 (207)
T ss_pred             hhcch
Confidence            64433

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=8.2e-36  Score=213.89  Aligned_cols=160  Identities=83%  Similarity=1.254  Sum_probs=140.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.++|.||+|+.+.+.+.+++..+.++||||+|+++|..+++.++++++++|+|||+++++||+++...|
T Consensus        16 sli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w   95 (176)
T cd04133          16 CMLICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKW   95 (176)
T ss_pred             HHHHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHH
Confidence            58899999999999999999888888888999999999999999999999999999999999999999999999985689


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      +..+++..+++|++|||||+|+.++.......++.+.++.+++..+++..++..|+||||++|.||+++|+.+++.+.++
T Consensus        96 ~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~~~  175 (176)
T cd04133          96 VPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVLQP  175 (176)
T ss_pred             HHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHhcC
Confidence            99998777789999999999996543111122344568899999999999985699999999999999999999987654

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,

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

Probab=100.00  E-value=2e-36  Score=212.18  Aligned_cols=148  Identities=32%  Similarity=0.526  Sum_probs=137.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||..+.|+..|.+|||..| ++++.+.+..+++|+|||+|||+|+++.+.|++++.++|+|||++|..||++. ..
T Consensus        37 slItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t-~k  115 (221)
T KOG0094|consen   37 SLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENT-SK  115 (221)
T ss_pred             HHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHH-HH
Confidence            68999999999999999999555 69999999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-C-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-P-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |++.+.... + ++-|+|||||.||.+..+          ++.++++..+++++. .|+++||+.|.||.++|..+...+
T Consensus       116 Wi~dv~~e~gs~~viI~LVGnKtDL~dkrq----------vs~eEg~~kAkel~a-~f~etsak~g~NVk~lFrrIaa~l  184 (221)
T KOG0094|consen  116 WIEDVRRERGSDDVIIFLVGNKTDLSDKRQ----------VSIEEGERKAKELNA-EFIETSAKAGENVKQLFRRIAAAL  184 (221)
T ss_pred             HHHHHHhccCCCceEEEEEcccccccchhh----------hhHHHHHHHHHHhCc-EEEEecccCCCCHHHHHHHHHHhc
Confidence            999998877 3 588899999999987664          999999999999999 999999999999999999988877


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      ...
T Consensus       185 ~~~  187 (221)
T KOG0094|consen  185 PGM  187 (221)
T ss_pred             cCc
Confidence            543

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2e-35  Score=219.62  Aligned_cols=160  Identities=33%  Similarity=0.637  Sum_probs=138.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.++|.||+++.+.+.+.+++..+.++||||+|+++|..+++.++++++++|+|||++++.||+.+...|
T Consensus        28 sLi~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w  107 (232)
T cd04174          28 AMLQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKW  107 (232)
T ss_pred             HHHHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHH
Confidence            47889999999999999999888888889999999999999999999999999999999999999999999999865799


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCccccccccc--CCCCCccccHHHHHHHHHHhCCCeEEEeccCCCC-cHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ-NVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~-~i~~~f~~l~~~i  159 (179)
                      +..+.+..++.|++|||||+|+..+.....  .....++++.+++.++++.+++..|+||||++|. ||+++|..+++.+
T Consensus       108 ~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~  187 (232)
T cd04174         108 KAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLC  187 (232)
T ss_pred             HHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHH
Confidence            999988777899999999999864211000  0012356899999999999998669999999997 8999999999987


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      ++.
T Consensus       188 ~~~  190 (232)
T cd04174         188 LNK  190 (232)
T ss_pred             HHh
Confidence            654

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.

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

Probab=100.00  E-value=4.2e-36  Score=209.08  Aligned_cols=149  Identities=26%  Similarity=0.452  Sum_probs=138.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      .|+.||+..+|.+.+..|+|..|- +.+++++++++++||||+|+|+|++....||+++.++++|||++.++||+.+ ..
T Consensus        21 clllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL-~~   99 (216)
T KOG0098|consen   21 CLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHL-TS   99 (216)
T ss_pred             HHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHH-HH
Confidence            378899999999999999998886 8889999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..++++. +++-++|+|||+|+...          |+++.++++.||++.|+ .+.|+||+++.||+++|......++
T Consensus       100 wL~D~rq~~~~NmvImLiGNKsDL~~r----------R~Vs~EEGeaFA~ehgL-ifmETSakt~~~VEEaF~nta~~Iy  168 (216)
T KOG0098|consen  100 WLEDARQHSNENMVIMLIGNKSDLEAR----------REVSKEEGEAFAREHGL-IFMETSAKTAENVEEAFINTAKEIY  168 (216)
T ss_pred             HHHHHHHhcCCCcEEEEEcchhhhhcc----------ccccHHHHHHHHHHcCc-eeehhhhhhhhhHHHHHHHHHHHHH
Confidence            999999986 79999999999999654          46999999999999998 7999999999999999999988887


Q ss_pred             CCc
Q 030337          161 QPP  163 (179)
Q Consensus       161 ~~~  163 (179)
                      ...
T Consensus       169 ~~~  171 (216)
T KOG0098|consen  169 RKI  171 (216)
T ss_pred             HHH
Confidence            543

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

Probab=100.00  E-value=2.5e-35  Score=204.85  Aligned_cols=152  Identities=30%  Similarity=0.494  Sum_probs=138.9

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ||+.+|++..|...|..|||..| .|.+.++++.+.++||||+|||+|.++...+|+++|++++|||+.++.||+.+ ..
T Consensus        24 SLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L-~~  102 (210)
T KOG0394|consen   24 SLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENL-EN  102 (210)
T ss_pred             HHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhccH-HH
Confidence            68899999999999999999555 59999999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-C----CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-P----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-~----~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |.+++-.+. +    .-|+||+|||+|+....        .+.++...++.||+..|..+|+|+|||+..||.++|+.+.
T Consensus       103 Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~--------~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia  174 (210)
T KOG0394|consen  103 WRKEFLIQASPQDPETFPFVILGNKIDVDGGK--------SRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIA  174 (210)
T ss_pred             HHHHHHHhcCCCCCCcccEEEEcccccCCCCc--------cceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHH
Confidence            988887665 2    58999999999997632        2579999999999999988999999999999999999999


Q ss_pred             HHHhCCc
Q 030337          157 KVVLQPP  163 (179)
Q Consensus       157 ~~i~~~~  163 (179)
                      +..+...
T Consensus       175 ~~aL~~E  181 (210)
T KOG0394|consen  175 RRALANE  181 (210)
T ss_pred             HHHHhcc
Confidence            9887654

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

Probab=100.00  E-value=8.7e-36  Score=200.38  Aligned_cols=148  Identities=30%  Similarity=0.522  Sum_probs=138.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|.++.|...|..|+|..+. +++.++|..++++||||+|+|+|+.+...|+++.|++++|||+++.+||.++ ..
T Consensus        23 sLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~Nv-~r  101 (198)
T KOG0079|consen   23 SLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNNV-KR  101 (198)
T ss_pred             HHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHhH-HH
Confidence            688999999999999999996665 8899999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |++.++.+++++|-++||||.|.++          .+.+..++++.|+..+|+ .++|+||+...|++..|.-|.++.++
T Consensus       102 WLeei~~ncdsv~~vLVGNK~d~~~----------RrvV~t~dAr~~A~~mgi-e~FETSaKe~~NvE~mF~cit~qvl~  170 (198)
T KOG0079|consen  102 WLEEIRNNCDSVPKVLVGNKNDDPE----------RRVVDTEDARAFALQMGI-ELFETSAKENENVEAMFHCITKQVLQ  170 (198)
T ss_pred             HHHHHHhcCccccceecccCCCCcc----------ceeeehHHHHHHHHhcCc-hheehhhhhcccchHHHHHHHHHHHH
Confidence            9999999999999999999999955          446999999999999999 99999999999999999999888765


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       171 ~  171 (198)
T KOG0079|consen  171 A  171 (198)
T ss_pred             H
Confidence            4

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=1.3e-34  Score=208.79  Aligned_cols=159  Identities=33%  Similarity=0.664  Sum_probs=138.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+.+.|.++|.||+++.+.+.+.+++..+.++||||+|+++|..+++.++++++++|+|||++++.||+++...|
T Consensus        20 sli~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w   99 (182)
T cd04172          20 ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKW   99 (182)
T ss_pred             HHHHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57899999999999999999988888889999999999999999999999999999999999999999999999976789


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCc-HHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~~f~~l~~~i  159 (179)
                      ++.+++..++.|++|||||+|+..+....  ....+.++++.+++.++++.+++..|+||||++|.| |+++|+.+++.+
T Consensus       100 ~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~  179 (182)
T cd04172         100 KGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  179 (182)
T ss_pred             HHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHH
Confidence            99998877889999999999996421100  000123468999999999999966899999999998 999999999876


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      ++
T Consensus       180 ~~  181 (182)
T cd04172         180 VN  181 (182)
T ss_pred             hc
Confidence            54

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

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

Probab=100.00  E-value=5e-35  Score=199.21  Aligned_cols=149  Identities=29%  Similarity=0.566  Sum_probs=139.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ||+.||+++.|++....|||..|. +.+.+++..+++.||||+|||+|+.+.+.||++|.++|+|||++.+++|..+ +.
T Consensus        26 SLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kL-d~  104 (209)
T KOG0080|consen   26 SLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKL-DI  104 (209)
T ss_pred             HHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhH-HH
Confidence            689999999999999889997776 8999999999999999999999999999999999999999999999999999 99


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+.++.-++  +++-.++||||+|...++          .++.+++..|++.+++ -|+|+||++..|++..|+.++..|
T Consensus       105 W~~Eld~Ystn~diikmlVgNKiDkes~R----------~V~reEG~kfAr~h~~-LFiE~SAkt~~~V~~~FeelveKI  173 (209)
T KOG0080|consen  105 WLKELDLYSTNPDIIKMLVGNKIDKESER----------VVDREEGLKFARKHRC-LFIECSAKTRENVQCCFEELVEKI  173 (209)
T ss_pred             HHHHHHhhcCCccHhHhhhcccccchhcc----------cccHHHHHHHHHhhCc-EEEEcchhhhccHHHHHHHHHHHH
Confidence            999999887  578888999999986544          5999999999999999 799999999999999999999999


Q ss_pred             hCCc
Q 030337          160 LQPP  163 (179)
Q Consensus       160 ~~~~  163 (179)
                      ++.+
T Consensus       174 i~tp  177 (209)
T KOG0080|consen  174 IETP  177 (209)
T ss_pred             hcCc
Confidence            8755

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=2.2e-34  Score=208.65  Aligned_cols=149  Identities=28%  Similarity=0.474  Sum_probs=136.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|.++.|.+++.||+|..+. +.+.+++..+.+++|||+|+++|..+++.++++++++|+|||++++.||+++ ..
T Consensus        21 sll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~-~~   99 (189)
T cd04121          21 EILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGI-DR   99 (189)
T ss_pred             HHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            578999999999999999987664 6688899999999999999999999999999999999999999999999999 79


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |++.+....+++|++|||||.|+.+..          .++.++++.+++..++ .++||||++|.||+++|+++++.+..
T Consensus       100 w~~~i~~~~~~~piilVGNK~DL~~~~----------~v~~~~~~~~a~~~~~-~~~e~SAk~g~~V~~~F~~l~~~i~~  168 (189)
T cd04121         100 WIKEIDEHAPGVPKILVGNRLHLAFKR----------QVATEQAQAYAERNGM-TFFEVSPLCNFNITESFTELARIVLM  168 (189)
T ss_pred             HHHHHHHhCCCCCEEEEEECccchhcc----------CCCHHHHHHHHHHcCC-EEEEecCCCCCCHHHHHHHHHHHHHH
Confidence            999998877889999999999996544          4888999999999998 89999999999999999999998875


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      ..
T Consensus       169 ~~  170 (189)
T cd04121         169 RH  170 (189)
T ss_pred             hc
Confidence            43

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=7.6e-34  Score=204.22  Aligned_cols=158  Identities=32%  Similarity=0.662  Sum_probs=137.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.++|.||+++.+.+.+.+++..+.++||||+|+++|..+++.++++++++|+|||++++.||+++...|
T Consensus        16 sli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w   95 (178)
T cd04131          16 ALLQVFAKDCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKW   95 (178)
T ss_pred             HHHHHHHhCcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHH
Confidence            57899999999999999999888888889999999999999999999999999999999999999999999999965789


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCc-HHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~~f~~l~~~i  159 (179)
                      +..+++..++.|++|||||+|+.++....  ....+.++++.+++.++++.+++..|+||||++|.| |+++|..+++..
T Consensus        96 ~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~  175 (178)
T cd04131          96 RGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMAC  175 (178)
T ss_pred             HHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHH
Confidence            99999888889999999999996421100  000123468899999999999976899999999995 999999999965


Q ss_pred             h
Q 030337          160 L  160 (179)
Q Consensus       160 ~  160 (179)
                      +
T Consensus       176 ~  176 (178)
T cd04131         176 L  176 (178)
T ss_pred             h
Confidence            5

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.

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=5e-34  Score=208.66  Aligned_cols=148  Identities=29%  Similarity=0.506  Sum_probs=133.4

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||..+.|.++|.||+|..+ .+.+.++++.+.++||||+|+++|+.++..|+++++++|+|||++++.||+.+ ..
T Consensus        15 Sli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l-~~   93 (202)
T cd04120          15 SLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDL-PK   93 (202)
T ss_pred             HHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            57899999999999999999665 47788999999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh-CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI-GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+++.. .++|++|||||+|+..+.          .++.+++.++++.. ++ .+++|||++|.||+++|+++++.+
T Consensus        94 w~~~i~~~~~~~~piilVgNK~DL~~~~----------~v~~~~~~~~a~~~~~~-~~~etSAktg~gV~e~F~~l~~~~  162 (202)
T cd04120          94 WMKMIDKYASEDAELLLVGNKLDCETDR----------EISRQQGEKFAQQITGM-RFCEASAKDNFNVDEIFLKLVDDI  162 (202)
T ss_pred             HHHHHHHhCCCCCcEEEEEECccccccc----------ccCHHHHHHHHHhcCCC-EEEEecCCCCCCHHHHHHHHHHHH
Confidence            999888765 579999999999996544          38888899999885 65 899999999999999999999988


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      ...
T Consensus       163 ~~~  165 (202)
T cd04120         163 LKK  165 (202)
T ss_pred             HHh
Confidence            653

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=8e-34  Score=210.02  Aligned_cols=160  Identities=33%  Similarity=0.650  Sum_probs=138.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|..+.|.++|.||+++.+.+.+.+++..+.++||||+|++.|..+++.+++++|++|+|||+++++||+++...|
T Consensus        16 sLi~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w   95 (222)
T cd04173          16 ALLQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKW   95 (222)
T ss_pred             HHHHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57899999999999999999998888889999999999999999999999999999999999999999999999997789


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCccccccccc--CCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCc-HHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~~f~~l~~~i  159 (179)
                      ...+....+++|++|||||+|+..+.....  ......+++.+++..+++..++..|+||||+++.+ |+++|..++...
T Consensus        96 ~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~  175 (222)
T cd04173          96 QGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVAS  175 (222)
T ss_pred             HHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHH
Confidence            888877778899999999999965321000  00123468889999999999976899999999885 999999999977


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      +.+
T Consensus       176 ~~~  178 (222)
T cd04173         176 LGR  178 (222)
T ss_pred             Hhc
Confidence            653

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=1.9e-33  Score=204.05  Aligned_cols=173  Identities=38%  Similarity=0.643  Sum_probs=145.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|..+.|.+.+.||+++.+.+.+.+++..+.++||||+|++.|..++..++++++++|+|||++++.||+.+...|
T Consensus        15 sli~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~   94 (189)
T cd04134          15 SLLNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKW   94 (189)
T ss_pred             HHHHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57899999999999999999888877888888999999999999999999999999999999999999999999985579


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|++|||||+|+.......  ........++.+++..+++..+...++++||++|.|++++|+++++.++
T Consensus        95 ~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~  174 (189)
T cd04134          95 LGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVAL  174 (189)
T ss_pred             HHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHh
Confidence            99998777789999999999997543210  0011222466778888888887558999999999999999999999887


Q ss_pred             CCchhhhhccCCCCCcccC
Q 030337          161 QPPKQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~~~~~~~~~~c~~~  179 (179)
                      ....    ..+.+++|+||
T Consensus       175 ~~~~----~~~~~~~~~~~  189 (189)
T cd04134         175 NVRP----PHPHSSACTIA  189 (189)
T ss_pred             cccc----cCcCCCcceeC
Confidence            5433    55566789987

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.

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

Probab=100.00  E-value=1.9e-34  Score=204.62  Aligned_cols=147  Identities=30%  Similarity=0.501  Sum_probs=137.9

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      |+-||..+.|..+..+|||..+. .++.++++.++.+||||+|||+|+.....||++|.|+++|||++...+|+++ .+|
T Consensus        30 LlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv-~rW  108 (222)
T KOG0087|consen   30 LLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENV-ERW  108 (222)
T ss_pred             HHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHH-HHH
Confidence            67899999999999999997775 7888999999999999999999999999999999999999999999999999 999


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +.+++.+. ++++++|||||+||.+.+          +++.+++..+++..++ .++|+||+++.|++++|+.++..|..
T Consensus       109 L~ELRdhad~nivimLvGNK~DL~~lr----------aV~te~~k~~Ae~~~l-~f~EtSAl~~tNVe~aF~~~l~~I~~  177 (222)
T KOG0087|consen  109 LKELRDHADSNIVIMLVGNKSDLNHLR----------AVPTEDGKAFAEKEGL-FFLETSALDATNVEKAFERVLTEIYK  177 (222)
T ss_pred             HHHHHhcCCCCeEEEEeecchhhhhcc----------ccchhhhHhHHHhcCc-eEEEecccccccHHHHHHHHHHHHHH
Confidence            99999998 799999999999998754          5999999999999998 89999999999999999999988765


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       178 ~  178 (222)
T KOG0087|consen  178 I  178 (222)
T ss_pred             H
Confidence            3

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

Probab=100.00  E-value=8.3e-34  Score=202.59  Aligned_cols=162  Identities=58%  Similarity=0.960  Sum_probs=149.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+..|..+.|.++|.||+-++|...+.++ ++.+.+.+|||+|||.|..+++.-|.++|+++++|++.++.||+++...
T Consensus        19 ~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~k   98 (198)
T KOG0393|consen   19 CLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSK   98 (198)
T ss_pred             EEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhh
Confidence            688999999999999999999999999995 9999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCccccccc--ccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQF--FIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+++++.+++++|+||||+|.|+..+...  ...+.+..+++.+++..+++..|...|+||||+++.|+.++|+..++..
T Consensus        99 W~pEi~~~cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~  178 (198)
T KOG0393|consen   99 WIPEIKHHCPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAA  178 (198)
T ss_pred             hhHHHHhhCCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHH
Confidence            99999999999999999999999854321  1334566789999999999999988999999999999999999999999


Q ss_pred             hCCch
Q 030337          160 LQPPK  164 (179)
Q Consensus       160 ~~~~~  164 (179)
                      +...+
T Consensus       179 l~~~~  183 (198)
T KOG0393|consen  179 LRPPQ  183 (198)
T ss_pred             hcccc
Confidence            88765

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

Probab=100.00  E-value=2.8e-34  Score=192.86  Aligned_cols=150  Identities=29%  Similarity=0.545  Sum_probs=138.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ||++||..++|.+.+..|.|..|. |++.-+.+.+.++||||+|+|+|+.+...|++++.++|++||+++.+||..+ ..
T Consensus        36 Sfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~sv-qd  114 (193)
T KOG0093|consen   36 SFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSV-QD  114 (193)
T ss_pred             hhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHH-HH
Confidence            689999999999999999997776 6666677889999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |.-.|+.++ .+.||++||||+|+..++-          ++.+.++.++..+|. .|+|+||+.+.|++++|+.++..|.
T Consensus       115 w~tqIktysw~naqvilvgnKCDmd~eRv----------is~e~g~~l~~~LGf-efFEtSaK~NinVk~~Fe~lv~~Ic  183 (193)
T KOG0093|consen  115 WITQIKTYSWDNAQVILVGNKCDMDSERV----------ISHERGRQLADQLGF-EFFETSAKENINVKQVFERLVDIIC  183 (193)
T ss_pred             HHHHheeeeccCceEEEEecccCCcccee----------eeHHHHHHHHHHhCh-HHhhhcccccccHHHHHHHHHHHHH
Confidence            999999888 7999999999999987664          999999999999999 9999999999999999999999887


Q ss_pred             CCch
Q 030337          161 QPPK  164 (179)
Q Consensus       161 ~~~~  164 (179)
                      .+..
T Consensus       184 ~kms  187 (193)
T KOG0093|consen  184 DKMS  187 (193)
T ss_pred             HHhh
Confidence            6443

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=1.5e-33  Score=204.71  Aligned_cols=165  Identities=33%  Similarity=0.553  Sum_probs=142.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++|+|||++++.||+.+ ..|
T Consensus        14 sli~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~-~~~   92 (190)
T cd04144          14 ALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERV-ERF   92 (190)
T ss_pred             HHHHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788999999999999999988888888899999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..+....    ++.|+++||||+|+....          .++...+..+++.+++ .++++||++|.|++++|+++++.
T Consensus        93 ~~~i~~~~~~~~~~~piilvgNK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~SAk~~~~v~~l~~~l~~~  161 (190)
T cd04144          93 REQIQRVKDESAADVPIMIVGNKCDKVYER----------EVSTEEGAALARRLGC-EFIEASAKTNVNVERAFYTLVRA  161 (190)
T ss_pred             HHHHHHHhcccCCCCCEEEEEEChhccccC----------ccCHHHHHHHHHHhCC-EEEEecCCCCCCHHHHHHHHHHH
Confidence            88776543    478999999999997544          3777778889998897 89999999999999999999998


Q ss_pred             HhCCchhh--------hhccCCCCCcccC
Q 030337          159 VLQPPKQK--------KKKKKSHRACSIL  179 (179)
Q Consensus       159 i~~~~~~~--------~~~~~~~~~c~~~  179 (179)
                      +.......        .+..+++.+|+||
T Consensus       162 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (190)
T cd04144         162 LRQQRQGGQGPKGGPTKKKEKKKRKCVIM  190 (190)
T ss_pred             HHHhhcccCCCcCCCCCcccccccCceeC
Confidence            76443222        3566677888887

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=4.5e-33  Score=201.47  Aligned_cols=171  Identities=46%  Similarity=0.796  Sum_probs=147.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|++++.++.|.+.+.||++..+...+..+ +..+.++||||+|+++|..+++.+++++|++|+|||++++.||+++...
T Consensus        15 sli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~   94 (187)
T cd04132          15 CLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDK   94 (187)
T ss_pred             HHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHH
Confidence            578999999999999999998887767775 7889999999999999999999999999999999999999999999667


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+....++.|+++||||.|+..+.      ...+.+..+++.+++..++...++++||++|.|+.++|+.+++.+..
T Consensus        95 ~~~~~~~~~~~~piilv~nK~Dl~~~~------~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  168 (187)
T cd04132          95 WFPEVNHFCPGTPIMLVGLKTDLRKDK------NLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALK  168 (187)
T ss_pred             HHHHHHHhCCCCCEEEEEeChhhhhCc------cccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            988887766789999999999996533      12234678889999999988689999999999999999999999987


Q ss_pred             Cchhh-hhccCCCCCcccC
Q 030337          162 PPKQK-KKKKKSHRACSIL  179 (179)
Q Consensus       162 ~~~~~-~~~~~~~~~c~~~  179 (179)
                      ..++. .++.+++.+|++|
T Consensus       169 ~~~~~~~~~~~~~~~c~~~  187 (187)
T cd04132         169 KEGKAIFKKKKKKRKCVVL  187 (187)
T ss_pred             hhhhhhhccCCCCcccccC
Confidence            76664 4566677889887

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=8.7e-33  Score=198.28  Aligned_cols=157  Identities=46%  Similarity=0.826  Sum_probs=135.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+++.|.++|.||+++.+.+.+.++++.+.++||||+|+++|..++..++++++++|+|||+++++||+++...|
T Consensus        16 sl~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w   95 (175)
T cd01874          16 CLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKW   95 (175)
T ss_pred             HHHHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHH
Confidence            57899999999999999999988878888999999999999999999999999999999999999999999999995569


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+....+++|++|||||+|+..+....  ......+.++.+++.++++..+...++|+||++|.|++++|+.++++.
T Consensus        96 ~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874          96 VPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             HHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            98888776789999999999986532110  111223568889999999998855899999999999999999998864

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

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

Probab=100.00  E-value=3.2e-34  Score=195.82  Aligned_cols=149  Identities=29%  Similarity=0.456  Sum_probs=131.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|++.|..|.|.+=..||+|+.|. .-+.+ .|..+++++|||+|||+|+++...||+|+-++++|||+++.+||+.+ .
T Consensus        23 sll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfehv-~  101 (213)
T KOG0091|consen   23 SLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFEHV-E  101 (213)
T ss_pred             HHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHHHH-H
Confidence            588999999999999999995554 44555 57889999999999999999999999999999999999999999999 8


Q ss_pred             HHHHHHhhcC--CC-CcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           81 KWIPELRHYA--PG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        81 ~~~~~i~~~~--~~-~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .|+.+...+.  |. +-++|||+|+|+...+          +++.++++.+++..|+ .|+|+||++|.||+++|.-+.+
T Consensus       102 ~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqR----------qVt~EEaEklAa~hgM-~FVETSak~g~NVeEAF~mlaq  170 (213)
T KOG0091|consen  102 NWVKEAAMATQGPDKVVFLLVGHKSDLQSQR----------QVTAEEAEKLAASHGM-AFVETSAKNGCNVEEAFDMLAQ  170 (213)
T ss_pred             HHHHHHHHhcCCCCeeEEEEeccccchhhhc----------cccHHHHHHHHHhcCc-eEEEecccCCCcHHHHHHHHHH
Confidence            9998887665  34 4466999999997654          5999999999999999 8999999999999999999988


Q ss_pred             HHhCCc
Q 030337          158 VVLQPP  163 (179)
Q Consensus       158 ~i~~~~  163 (179)
                      .+.+..
T Consensus       171 eIf~~i  176 (213)
T KOG0091|consen  171 EIFQAI  176 (213)
T ss_pred             HHHHHH
Confidence            776543

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

Probab=100.00  E-value=2.5e-33  Score=189.58  Aligned_cols=150  Identities=28%  Similarity=0.453  Sum_probs=139.3

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      |+++|+...|.++...|+|..|- +.+.++++.++++||||+|||+|++..+.||++|-+.++|||+++++||+.+ ..|
T Consensus        25 LLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaL-tnW  103 (214)
T KOG0086|consen   25 LLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNAL-TNW  103 (214)
T ss_pred             HHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHH-HHH
Confidence            68999999999999999998886 7788899999999999999999999999999999999999999999999999 899


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +..++... +++-|+++|||.|+.+++.          ++..++.+|+.+..+ -+.|+||++|.|+++.|-...+.|+.
T Consensus       104 L~DaR~lAs~nIvviL~GnKkDL~~~R~----------VtflEAs~FaqEnel-~flETSa~TGeNVEEaFl~c~~tIl~  172 (214)
T KOG0086|consen  104 LTDARTLASPNIVVILCGNKKDLDPERE----------VTFLEASRFAQENEL-MFLETSALTGENVEEAFLKCARTILN  172 (214)
T ss_pred             HHHHHhhCCCcEEEEEeCChhhcChhhh----------hhHHHHHhhhcccce-eeeeecccccccHHHHHHHHHHHHHH
Confidence            99999887 6888999999999987664          999999999999998 89999999999999999999998876


Q ss_pred             Cchh
Q 030337          162 PPKQ  165 (179)
Q Consensus       162 ~~~~  165 (179)
                      +.+.
T Consensus       173 kIE~  176 (214)
T KOG0086|consen  173 KIES  176 (214)
T ss_pred             HHhh
Confidence            5443

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

Probab=100.00  E-value=2e-33  Score=189.42  Aligned_cols=147  Identities=29%  Similarity=0.483  Sum_probs=135.6

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      |++||.+|.|.|.+..|||+.|+ +++.++|++++++||||+|||+|+++...||+.||++|+|||++=.+||+-+ .+|
T Consensus        23 lvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdcl-pew  101 (213)
T KOG0095|consen   23 LVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCL-PEW  101 (213)
T ss_pred             hhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhh-HHH
Confidence            78999999999999999997776 9999999999999999999999999999999999999999999999999988 999


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +.+|.++. +.+--++||||.|+.+.+          +++...++++++.... -|+|+||+...|++++|..+.-.++.
T Consensus       102 lreie~yan~kvlkilvgnk~d~~drr----------evp~qigeefs~~qdm-yfletsakea~nve~lf~~~a~rli~  170 (213)
T KOG0095|consen  102 LREIEQYANNKVLKILVGNKIDLADRR----------EVPQQIGEEFSEAQDM-YFLETSAKEADNVEKLFLDLACRLIS  170 (213)
T ss_pred             HHHHHHHhhcceEEEeeccccchhhhh----------hhhHHHHHHHHHhhhh-hhhhhcccchhhHHHHHHHHHHHHHH
Confidence            99999988 467788999999997755          4899999999999887 79999999999999999998877664


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       171 ~  171 (213)
T KOG0095|consen  171 E  171 (213)
T ss_pred             H
Confidence            3

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=2.9e-32  Score=195.01  Aligned_cols=148  Identities=20%  Similarity=0.398  Sum_probs=134.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++|+|||++++.||+.+ ..|
T Consensus        17 sL~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~-~~~   95 (172)
T cd04141          17 AVTMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEA-SEF   95 (172)
T ss_pred             HHHHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHH-HHH
Confidence            5788999999999999999988888888999999999999999999999999999999999999999999999999 678


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....  +++|+++||||+|+....          .++.+++..+++..++ ++++|||++|.||+++|+++++.+.
T Consensus        96 ~~~i~~~~~~~~~piilvgNK~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~e~Sa~~~~~v~~~f~~l~~~~~  164 (172)
T cd04141          96 KKLITRVRLTEDIPLVLVGNKVDLESQR----------QVTTEEGRNLAREFNC-PFFETSAALRHYIDDAFHGLVREIR  164 (172)
T ss_pred             HHHHHHhcCCCCCCEEEEEEChhhhhcC----------ccCHHHHHHHHHHhCC-EEEEEecCCCCCHHHHHHHHHHHHH
Confidence            88777643  579999999999996544          3888899999999998 8999999999999999999999887


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ..
T Consensus       165 ~~  166 (172)
T cd04141         165 RK  166 (172)
T ss_pred             Hh
Confidence            53

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

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=4.2e-32  Score=196.94  Aligned_cols=165  Identities=30%  Similarity=0.491  Sum_probs=143.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|..+.|.+++.||++..+.+.+.+++..+.++||||+|+++|..++..++++++++++|||++++.+|+.+ ..|
T Consensus        20 sLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~-~~~   98 (189)
T PTZ00369         20 ALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEI-ASF   98 (189)
T ss_pred             HHHHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888889999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....  +++|+++||||+|+.+..          +++.+++..+++.++. +++++||++|.||+++|+++++.+.
T Consensus        99 ~~~i~~~~~~~~~piiiv~nK~Dl~~~~----------~i~~~~~~~~~~~~~~-~~~e~Sak~~~gi~~~~~~l~~~l~  167 (189)
T PTZ00369         99 REQILRVKDKDRVPMILVGNKCDLDSER----------QVSTGEGQELAKSFGI-PFLETSAKQRVNVDEAFYELVREIR  167 (189)
T ss_pred             HHHHHHhcCCCCCCEEEEEECccccccc----------ccCHHHHHHHHHHhCC-EEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            88877654  479999999999986543          3777788888888887 8999999999999999999998876


Q ss_pred             CCc---hhhhhccCCCCCcccC
Q 030337          161 QPP---KQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~---~~~~~~~~~~~~c~~~  179 (179)
                      ...   .+.++.++++.-|++|
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~  189 (189)
T PTZ00369        168 KYLKEDMPSQKQKKKGGLCLIL  189 (189)
T ss_pred             HHhhccchhhhhhccCCeeeeC
Confidence            543   3344667777778876

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=9.7e-32  Score=192.66  Aligned_cols=156  Identities=58%  Similarity=0.948  Sum_probs=134.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+++.|.++|.||+++.+.+.+.+++..+.++||||+|++.|..+++.+++++|++|+|||+++++||+++...|
T Consensus        16 sli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~   95 (174)
T cd01871          16 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKW   95 (174)
T ss_pred             HHHHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57889999999999999999888888888999999999999999999999999999999999999999999999985579


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..+....++.|++|||||+|+.+.....  ......++++.+++..+++.++...++||||++|.|++++|+.+++.
T Consensus        96 ~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871          96 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             HHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            88887766789999999999996432100  00112346889999999999986689999999999999999999874

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

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

Probab=100.00  E-value=4.3e-33  Score=184.60  Aligned_cols=147  Identities=31%  Similarity=0.541  Sum_probs=135.7

Q ss_pred             eehhhhhCCCC-CcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            4 IYIICNYSLGK-QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         4 l~~~~~~~~f~-~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      |+.||..|-|- .+.++|+|..|. +.+..++++++++||||+|||+|++....||+++|+++++||+++..||+++ ..
T Consensus        13 llir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~-~~   91 (192)
T KOG0083|consen   13 LLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNC-QA   91 (192)
T ss_pred             EEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHH-HH
Confidence            78899999995 678999998776 8888999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+.+|.++. ..+.+.++|||+|+.+++          .+..++++.+++.+++ +|.|+||++|.|++-.|..+...+.
T Consensus        92 wlsei~ey~k~~v~l~llgnk~d~a~er----------~v~~ddg~kla~~y~i-pfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   92 WLSEIHEYAKEAVALMLLGNKCDLAHER----------AVKRDDGEKLAEAYGI-PFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             HHHHHHHHHHhhHhHhhhccccccchhh----------ccccchHHHHHHHHCC-CceeccccccccHhHHHHHHHHHHH
Confidence            999999988 578999999999998766          4889999999999999 8999999999999999999998776


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      +.
T Consensus       161 k~  162 (192)
T KOG0083|consen  161 KL  162 (192)
T ss_pred             Hh
Confidence            53

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

Probab=100.00  E-value=1.5e-31  Score=195.25  Aligned_cols=146  Identities=23%  Similarity=0.378  Sum_probs=129.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|+.+.|.+.|.||+|..+. +.+.++++.+.++||||+|+++|..+++.++++++++|+|||++++.||+.+ ..
T Consensus        10 sLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i-~~   88 (200)
T smart00176       10 TFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNV-PN   88 (200)
T ss_pred             HHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHH-HH
Confidence            588999999999999999996554 7778889999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.+..+++|++|||||+|+....           +..+. ..+++..++ .|++|||++|.||.++|++|++.+..
T Consensus        89 w~~~i~~~~~~~piilvgNK~Dl~~~~-----------v~~~~-~~~~~~~~~-~~~e~SAk~~~~v~~~F~~l~~~i~~  155 (200)
T smart00176       89 WHRDLVRVCENIPIVLCGNKVDVKDRK-----------VKAKS-ITFHRKKNL-QYYDISAKSNYNFEKPFLWLARKLIG  155 (200)
T ss_pred             HHHHHHHhCCCCCEEEEEECccccccc-----------CCHHH-HHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999998877789999999999985422           44333 467777787 89999999999999999999998865


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       156 ~  156 (200)
T smart00176      156 D  156 (200)
T ss_pred             c
Confidence            4

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

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

Probab=99.98  E-value=5.1e-33  Score=189.09  Aligned_cols=148  Identities=26%  Similarity=0.550  Sum_probs=137.6

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ||+.||+.+.|......|+...| .+.+.+.++...+.||||+|||+|-.+.+.||++++++++|||++|++||+.+ ..
T Consensus        28 SLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKV-Kn  106 (218)
T KOG0088|consen   28 SLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKV-KN  106 (218)
T ss_pred             HHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHH-HH
Confidence            68899999999999999997666 48899999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |..+++.+. +.+.+++||||+|+.+++.          ++..++..+++.-|. .|+++||+++.||.++|+.|....+
T Consensus       107 WV~Elr~mlGnei~l~IVGNKiDLEeeR~----------Vt~qeAe~YAesvGA-~y~eTSAk~N~Gi~elFe~Lt~~Mi  175 (218)
T KOG0088|consen  107 WVLELRTMLGNEIELLIVGNKIDLEEERQ----------VTRQEAEAYAESVGA-LYMETSAKDNVGISELFESLTAKMI  175 (218)
T ss_pred             HHHHHHHHhCCeeEEEEecCcccHHHhhh----------hhHHHHHHHHHhhch-hheecccccccCHHHHHHHHHHHHH
Confidence            999999988 5788999999999987664          999999999999998 8999999999999999999988776


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      +.
T Consensus       176 E~  177 (218)
T KOG0088|consen  176 EH  177 (218)
T ss_pred             HH
Confidence            53

>PTZ00099 rab6; Provisional

Probab=99.98  E-value=5.4e-31  Score=188.94  Aligned_cols=142  Identities=30%  Similarity=0.484  Sum_probs=126.0

Q ss_pred             hCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhh
Q 030337           10 YSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH   88 (179)
Q Consensus        10 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~   88 (179)
                      .+.|.++|.||+|..+ .+.+.++++.+.+.||||+|++++..++..++++|+++|+|||++++.||+.+ ..|+..+..
T Consensus         2 ~~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~-~~w~~~i~~   80 (176)
T PTZ00099          2 YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENT-TKWIQDILN   80 (176)
T ss_pred             CCCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHH-HHHHHHHHH
Confidence            4789999999999655 47788899999999999999999999999999999999999999999999999 789888866


Q ss_pred             cC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337           89 YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus        89 ~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                      .. +++|++|||||+|+....          .++.+++..+++.++. .++++||++|.||+++|++|++.+.+..
T Consensus        81 ~~~~~~piilVgNK~DL~~~~----------~v~~~e~~~~~~~~~~-~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         81 ERGKDVIIALVGNKTDLGDLR----------KVTYEEGMQKAQEYNT-MFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             hcCCCCeEEEEEECccccccc----------CCCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            54 579999999999996533          3788888899998887 7999999999999999999999886533

>cd04109 Rab28 Rab28 subfamily

Probab=99.97  E-value=5.4e-31  Score=194.79  Aligned_cols=147  Identities=22%  Similarity=0.330  Sum_probs=129.7

Q ss_pred             eeehhhhhCCCCCcccCceeec-eeeEEEECC-eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDN-FSANVVVDG-STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~-~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|..+.|...|.||+|.. +.+.+.+++ ..+.++||||+|++.+..++..+++++|++|+|||+++++||+++ .
T Consensus        15 sLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~-~   93 (215)
T cd04109          15 SLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENL-E   93 (215)
T ss_pred             HHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHH-H
Confidence            4788999999999999999944 457777754 679999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           81 KWIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        81 ~~~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      .|+..+.+..    .++|+++||||+|+.+..          .++.+++..+++.+++ .++++||++|.|++++|++++
T Consensus        94 ~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~----------~v~~~~~~~~~~~~~~-~~~~iSAktg~gv~~lf~~l~  162 (215)
T cd04109          94 DWYSMVRKVLKSSETQPLVVLVGNKTDLEHNR----------TVKDDKHARFAQANGM-ESCLVSAKTGDRVNLLFQQLA  162 (215)
T ss_pred             HHHHHHHHhccccCCCceEEEEEECccccccc----------ccCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHH
Confidence            8999888764    257899999999996544          3788889999999997 899999999999999999999


Q ss_pred             HHHhC
Q 030337          157 KVVLQ  161 (179)
Q Consensus       157 ~~i~~  161 (179)
                      +.+..
T Consensus       163 ~~l~~  167 (215)
T cd04109         163 AELLG  167 (215)
T ss_pred             HHHHh
Confidence            98864

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

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

Probab=99.97  E-value=4.9e-32  Score=184.44  Aligned_cols=151  Identities=31%  Similarity=0.496  Sum_probs=136.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC---------CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD---------GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~---------~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +++++|..+.|....+.|+|..|. |++.++         +..+.+++|||+|||+|+++...++++|-+++++||+++.
T Consensus        24 s~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~e  103 (219)
T KOG0081|consen   24 SFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSE  103 (219)
T ss_pred             EEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEeccch
Confidence            689999999999999999997775 777763         2568999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           73 ASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      .||-++ ..|+.+++-+.  .++.||++|||+|+.+.+          .++.+++..++..+++ +|+|+||.+|.||++
T Consensus       104 qSFLnv-rnWlSQL~~hAYcE~PDivlcGNK~DL~~~R----------~Vs~~qa~~La~kygl-PYfETSA~tg~Nv~k  171 (219)
T KOG0081|consen  104 QSFLNV-RNWLSQLQTHAYCENPDIVLCGNKADLEDQR----------VVSEDQAAALADKYGL-PYFETSACTGTNVEK  171 (219)
T ss_pred             HHHHHH-HHHHHHHHHhhccCCCCEEEEcCccchhhhh----------hhhHHHHHHHHHHhCC-CeeeeccccCcCHHH
Confidence            999999 89999998654  688899999999997765          4999999999999999 899999999999999


Q ss_pred             HHHHHHHHHhCCchh
Q 030337          151 VFDAAIKVVLQPPKQ  165 (179)
Q Consensus       151 ~f~~l~~~i~~~~~~  165 (179)
                      +.+.|++.+++..++
T Consensus       172 ave~LldlvM~Rie~  186 (219)
T KOG0081|consen  172 AVELLLDLVMKRIEQ  186 (219)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999988876544

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=1e-30  Score=191.44  Aligned_cols=150  Identities=27%  Similarity=0.389  Sum_probs=132.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|+++.|.+.+.||+|..+. +.+.++ +..+.+++|||+|+++|..+++.++++++++|+|||++++.+|+.+ .
T Consensus        15 sli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~-~   93 (201)
T cd04107          15 SIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAV-L   93 (201)
T ss_pred             HHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHH-H
Confidence            578999999999999999996654 677777 8889999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           81 KWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .|+..+....     .++|++|||||+|+....          .++.+++.++++..+...++++||++|.|++++|+++
T Consensus        94 ~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~----------~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l  163 (201)
T cd04107          94 KWKADLDSKVTLPNGEPIPCLLLANKCDLKKRL----------AKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFL  163 (201)
T ss_pred             HHHHHHHHhhcccCCCCCcEEEEEECCCccccc----------ccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHH
Confidence            8988876432     478999999999996433          3788889999999995589999999999999999999


Q ss_pred             HHHHhCCc
Q 030337          156 IKVVLQPP  163 (179)
Q Consensus       156 ~~~i~~~~  163 (179)
                      ++.+....
T Consensus       164 ~~~l~~~~  171 (201)
T cd04107         164 VKNILAND  171 (201)
T ss_pred             HHHHHHhc
Confidence            99887654

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.

>cd04122 Rab14 Rab14 subfamily

Probab=99.97  E-value=7.1e-31  Score=186.56  Aligned_cols=147  Identities=27%  Similarity=0.502  Sum_probs=132.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+++.||+|..+. +.+.+++..+.++||||+|++++...+..++++++++|+|||++++.+|+.+ ..
T Consensus        17 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~   95 (166)
T cd04122          17 CLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHL-SS   95 (166)
T ss_pred             HHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            578999999999999999997775 6677899999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++||||+|+....          .++.+++..+++..++ .++++||++|.|++++|.++++.+.
T Consensus        96 ~~~~~~~~~~~~~~iiiv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~e~Sa~~~~~i~e~f~~l~~~~~  164 (166)
T cd04122          96 WLTDARNLTNPNTVIFLIGNKADLEAQR----------DVTYEEAKQFADENGL-LFLECSAKTGENVEDAFLETAKKIY  164 (166)
T ss_pred             HHHHHHHhCCCCCeEEEEEECccccccc----------CcCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            998887665 579999999999997654          3778889999999887 8999999999999999999998875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       165 ~  165 (166)
T cd04122         165 Q  165 (166)
T ss_pred             h
Confidence            4

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=99.97  E-value=1.3e-30  Score=188.16  Aligned_cols=152  Identities=26%  Similarity=0.475  Sum_probs=128.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|++||+++.|.++|.||+|..+. +.+.+++..+.++||||+|+++|..+++.++++++++++|||++++.||+++ ..
T Consensus        15 sLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i-~~   93 (182)
T cd04128          15 SLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSI-KE   93 (182)
T ss_pred             HHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHH-HH
Confidence            578999999999999999996654 7888999999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCC-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.+..+ ..| ++||||+|+..+..     ........+++.++++.+++ .++++||++|.|++++|+++++.+.
T Consensus        94 ~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~-----~~~~~~~~~~~~~~a~~~~~-~~~e~SAk~g~~v~~lf~~l~~~l~  166 (182)
T cd04128          94 WYRQARGFNKTAIP-ILVGTKYDLFADLP-----PEEQEEITKQARKYAKAMKA-PLIFCSTSHSINVQKIFKIVLAKAF  166 (182)
T ss_pred             HHHHHHHhCCCCCE-EEEEEchhcccccc-----chhhhhhHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            9998887653 466 68899999963211     00011224677888988896 8999999999999999999999887


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      +.
T Consensus       167 ~~  168 (182)
T cd04128         167 DL  168 (182)
T ss_pred             hc
Confidence            63

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

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

Probab=99.97  E-value=2.8e-30  Score=184.60  Aligned_cols=159  Identities=55%  Similarity=0.936  Sum_probs=138.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|..+.|.+.+.||++..+...+.+++..+.+++|||+|+++|..++..+++++|++|+|||+++++||+++...|
T Consensus        13 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~   92 (174)
T smart00174       13 CLLISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKW   92 (174)
T ss_pred             HHHHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57889999999999999999888888888999999999999999999999999999999999999999999999986679


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..++.|++|||||+|+..+....  ......+.++.+++.++++..+...++++||++|.|++++|+.+++.++
T Consensus        93 ~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174       93 YPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             HHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            99998877889999999999997532110  0112234578888999999999768999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       173 ~  173 (174)
T smart00174      173 N  173 (174)
T ss_pred             C
Confidence            5

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.97  E-value=2.3e-30  Score=189.29  Aligned_cols=148  Identities=28%  Similarity=0.488  Sum_probs=132.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|.++.|.+.+.||+|..+. ..+.+++..+.+.|||++|++.+..++..++++++++++|||++++++|+.+ ..
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~-~~   99 (199)
T cd04110          21 SLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNV-KR   99 (199)
T ss_pred             HHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHH-HH
Confidence            578899999999999999986554 7777888889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+....+..|++|||||+|+.+..          .++.+++..+++.++. .++++||++|.||+++|+++++.++.
T Consensus       100 ~~~~i~~~~~~~piivVgNK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~e~Sa~~~~gi~~lf~~l~~~~~~  168 (199)
T cd04110         100 WLQEIEQNCDDVCKVLVGNKNDDPERK----------VVETEDAYKFAGQMGI-SLFETSAKENINVEEMFNCITELVLR  168 (199)
T ss_pred             HHHHHHHhCCCCCEEEEEECccccccc----------ccCHHHHHHHHHHcCC-EEEEEECCCCcCHHHHHHHHHHHHHH
Confidence            999988877789999999999997644          3677888889998887 89999999999999999999998875


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       169 ~  169 (199)
T cd04110         169 A  169 (199)
T ss_pred             h
Confidence            3

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.97  E-value=3e-30  Score=182.68  Aligned_cols=144  Identities=30%  Similarity=0.523  Sum_probs=130.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+++|+++.|.+.+.||+|..+. +.+.+++..+.++|||++|++++..++..++++++++++|||+++++||+.+ ..
T Consensus        15 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~-~~   93 (161)
T cd04117          15 CLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHI-MK   93 (161)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999996654 7788899899999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      |+..+.... .+.|+++||||.|+....          .++.+++..+++.+++ +|+++||++|.|++++|.+|++.
T Consensus        94 ~~~~~~~~~~~~~~iilvgnK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          94 WVSDVDEYAPEGVQKILIGNKADEEQKR----------QVGDEQGNKLAKEYGM-DFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHHhCCCCCeEEEEEECccccccc----------CCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHhh
Confidence            999887766 479999999999996644          3778899999999997 89999999999999999999874

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

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

Probab=99.97  E-value=3.7e-30  Score=186.88  Aligned_cols=150  Identities=33%  Similarity=0.533  Sum_probs=137.7

Q ss_pred             eeeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            2 RFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         2 ~~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      -+|+.+|+++.|.++|.||+++.|.+.+.++++.+.+.|+||+|++.|..+...++++++|+++||+++|+.||+.+ ..
T Consensus        17 Sal~~qf~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~-~~   95 (196)
T KOG0395|consen   17 SALTIQFLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEA-KQ   95 (196)
T ss_pred             chheeeecccccccccCCCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHH-HH
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +...|.+..  ..+|+++||||+|+...+          .++.+++..++..+++ .|+|+||+.+.+++++|..|++.+
T Consensus        96 l~~~I~r~~~~~~~PivlVGNK~Dl~~~R----------~V~~eeg~~la~~~~~-~f~E~Sak~~~~v~~~F~~L~r~~  164 (196)
T KOG0395|consen   96 LREQILRVKGRDDVPIILVGNKCDLERER----------QVSEEEGKALARSWGC-AFIETSAKLNYNVDEVFYELVREI  164 (196)
T ss_pred             HHHHHHHhhCcCCCCEEEEEEcccchhcc----------ccCHHHHHHHHHhcCC-cEEEeeccCCcCHHHHHHHHHHHH
Confidence            888884433  478999999999997654          4999999999999999 699999999999999999999988


Q ss_pred             hCCc
Q 030337          160 LQPP  163 (179)
Q Consensus       160 ~~~~  163 (179)
                      -.+.
T Consensus       165 ~~~~  168 (196)
T KOG0395|consen  165 RLPR  168 (196)
T ss_pred             Hhhh
Confidence            6633

>cd04136 Rap_like Rap-like subfamily

Probab=99.97  E-value=6.7e-30  Score=180.54  Aligned_cols=145  Identities=27%  Similarity=0.522  Sum_probs=129.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++++|||++++.+|+++ ..|
T Consensus        16 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   94 (163)
T cd04136          16 ALTVQFVQGIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDL-QDL   94 (163)
T ss_pred             HHHHHHHhCCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+....  .+.|+++||||+|+.+...          +..+++..+++.++. +++++||++|.|+.++|+++++.+
T Consensus        95 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136          95 REQILRVKDTENVPMVLVGNKCDLEDERV----------VSREEGQALARQWGC-PFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             HHHHHHhcCCCCCCEEEEEECccccccce----------ecHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHHHHhc
Confidence            88887653  4799999999999965442          677778888888886 899999999999999999998865

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=8.4e-30  Score=188.82  Aligned_cols=146  Identities=23%  Similarity=0.365  Sum_probs=128.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|+.+.|.+.+.||+|..+. ..+..++..+.++||||+|+++|..++..++++++++|+|||++++.+|+.+ ..
T Consensus        28 sli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i-~~  106 (219)
T PLN03071         28 TFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNV-PT  106 (219)
T ss_pred             HHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHH-HH
Confidence            578899999999999999996554 6677788889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.+..++.|++|||||+|+....           +..+.+ .+++..++ .|+++||++|.|++++|+++++.+..
T Consensus       107 w~~~i~~~~~~~piilvgNK~Dl~~~~-----------v~~~~~-~~~~~~~~-~~~e~SAk~~~~i~~~f~~l~~~~~~  173 (219)
T PLN03071        107 WHRDLCRVCENIPIVLCGNKVDVKNRQ-----------VKAKQV-TFHRKKNL-QYYEISAKSNYNFEKPFLYLARKLAG  173 (219)
T ss_pred             HHHHHHHhCCCCcEEEEEEchhhhhcc-----------CCHHHH-HHHHhcCC-EEEEcCCCCCCCHHHHHHHHHHHHHc
Confidence            999998877789999999999996422           444444 67777777 89999999999999999999998875


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      .
T Consensus       174 ~  174 (219)
T PLN03071        174 D  174 (219)
T ss_pred             C
Confidence            4

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=1.6e-29  Score=184.09  Aligned_cols=146  Identities=42%  Similarity=0.608  Sum_probs=118.4

Q ss_pred             hCCCCCcccCcee--eceeeE--------EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337           10 YSLGKQDYVPTVF--DNFSAN--------VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus        10 ~~~f~~~~~pt~~--~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      ++.|.++|.||+|  +.+...        +.+++..+.++||||+|++.  .+...++++++++|+|||++++.||+++.
T Consensus        30 ~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~  107 (195)
T cd01873          30 QYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVK  107 (195)
T ss_pred             cccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHH
Confidence            3456788999997  444433        25789999999999999986  35567999999999999999999999994


Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCcccccccc---------cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           80 KKWIPELRHYAPGVPIILVGTKLDLRDDKQFF---------IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        80 ~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      ..|+..++...++.|++|||||+|+.......         ......++++.++++++++.+++ .|+||||++|.||++
T Consensus       108 ~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~-~~~E~SAkt~~~V~e  186 (195)
T cd01873         108 TMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGI-PYYETSVVTQFGVKD  186 (195)
T ss_pred             HHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHHHhCC-EEEEcCCCCCCCHHH
Confidence            46999998777789999999999996421100         00012467899999999999998 999999999999999


Q ss_pred             HHHHHHHH
Q 030337          151 VFDAAIKV  158 (179)
Q Consensus       151 ~f~~l~~~  158 (179)
                      +|+.++++
T Consensus       187 ~F~~~~~~  194 (195)
T cd01873         187 VFDNAIRA  194 (195)
T ss_pred             HHHHHHHh
Confidence            99999874

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.97  E-value=1.1e-29  Score=184.11  Aligned_cols=164  Identities=26%  Similarity=0.452  Sum_probs=139.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.|.||+|..+ .+.+.++++.+.+++|||+|++.+..++..++++++++++|||++++.+|+.+ ..
T Consensus        15 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i-~~   93 (188)
T cd04125          15 SLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENL-KF   93 (188)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHH-HH
Confidence            57899999999999999998655 47788888899999999999999999999999999999999999999999999 77


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++||||.|+.+..          .++.+.+..+++..++ +++++||++|.|++++|+++++.+.
T Consensus        94 ~~~~i~~~~~~~~~~ivv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~evSa~~~~~i~~~f~~l~~~~~  162 (188)
T cd04125          94 WINEINRYARENVIKVIVANKSDLVNNK----------VVDSNIAKSFCDSLNI-PFFETSAKQSINVEEAFILLVKLII  162 (188)
T ss_pred             HHHHHHHhCCCCCeEEEEEECCCCcccc----------cCCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999888765 468999999999997544          3777888889888888 8999999999999999999999886


Q ss_pred             CCchhh-------hhccCCCCCccc
Q 030337          161 QPPKQK-------KKKKKSHRACSI  178 (179)
Q Consensus       161 ~~~~~~-------~~~~~~~~~c~~  178 (179)
                      ......       .+.-.++.+|.|
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~  187 (188)
T cd04125         163 KRLEEQELSPKNIKQQFKKKNNCFI  187 (188)
T ss_pred             HHhhcCcCCccccccccccccCccc
Confidence            532221       234455566765

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.97  E-value=1e-29  Score=180.16  Aligned_cols=145  Identities=28%  Similarity=0.525  Sum_probs=130.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++++|||++++.+|+.+ ..|
T Consensus        16 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~~~   94 (164)
T cd04175          16 ALTVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDL-QDL   94 (164)
T ss_pred             HHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999999 678


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+....  .+.|+++||||+|+.+...          ++.+++..+++.+++ +++++||++|.|++++|+++++++
T Consensus        95 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175          95 REQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWGC-AFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             HHHHHHhcCCCCCCEEEEEECCcchhccE----------EcHHHHHHHHHHhCC-EEEEeeCCCCCCHHHHHHHHHHHh
Confidence            77776543  5899999999999976443          677778888888887 899999999999999999999865

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=3.3e-29  Score=179.24  Aligned_cols=155  Identities=46%  Similarity=0.813  Sum_probs=132.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|.++.|..+|.||+++.+...+.+++..+.+++|||+|+++|..+++.+++++|++|+|||++++.+|+.+...|
T Consensus        15 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~   94 (173)
T cd04130          15 SLIVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKW   94 (173)
T ss_pred             HHHHHHHhCCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHH
Confidence            57889999999999999998888888888998999999999999999999999999999999999999999999985679


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +..+....++.|+++||||+|+.......  ......+.+..+++..+++..+...++++||++|.|++++|+.++-
T Consensus        95 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130          95 IPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             HHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            98888665679999999999996432100  0001234678889999999999878999999999999999998764

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,

>cd04176 Rap2 Rap2 subgroup

Probab=99.97  E-value=1.7e-29  Score=178.75  Aligned_cols=145  Identities=27%  Similarity=0.492  Sum_probs=129.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+++.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++++|||++++.||+++ ..|
T Consensus        16 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~-~~~   94 (163)
T cd04176          16 ALTVQFVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDI-KPM   94 (163)
T ss_pred             HHHHHHHcCCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4678999999999999999877778888999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+....  .+.|+++||||+|+....          .+...++..+++.++. +++++||++|.|+.++|.++++.+
T Consensus        95 ~~~~~~~~~~~~~piviv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176          95 RDQIVRVKGYEKVPIILVGNKVDLESER----------EVSSAEGRALAEEWGC-PFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHhcCCCCCCEEEEEECccchhcC----------ccCHHHHHHHHHHhCC-EEEEecCCCCCCHHHHHHHHHHhc
Confidence            88877654  579999999999996543          2666778888888887 899999999999999999998754

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

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

Probab=99.97  E-value=1.3e-29  Score=179.13  Aligned_cols=146  Identities=38%  Similarity=0.735  Sum_probs=134.8

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|.++.|.+++.||+| +.+.+.+..++..+.++|||++|+++|..++..++++++++|+|||+++++||+.+ ..
T Consensus        14 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~-~~   92 (162)
T PF00071_consen   14 SLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENL-KK   92 (162)
T ss_dssp             HHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTH-HH
T ss_pred             HHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cc
Confidence            57889999999999999997 55568899999999999999999999999888999999999999999999999999 79


Q ss_pred             HHHHHhhcCC-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |++.+....+ ++|++|+|||.|+....          .++.++++++++.++. .|+|+||+++.||.++|..+++.+.
T Consensus        93 ~~~~i~~~~~~~~~iivvg~K~D~~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen   93 WLEEIQKYKPEDIPIIVVGNKSDLSDER----------EVSVEEAQEFAKELGV-PYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HHHHHHHHSTTTSEEEEEEETTTGGGGS----------SSCHHHHHHHHHHTTS-EEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             ccccccccccccccceeeeccccccccc----------cchhhHHHHHHHHhCC-EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            9999998886 79999999999998744          4899999999999995 9999999999999999999999875

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 ....

>cd04126 Rab20 Rab20 subfamily

Probab=99.97  E-value=2e-29  Score=186.44  Aligned_cols=154  Identities=26%  Similarity=0.348  Sum_probs=122.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.+ +.||+|..+...   ....+.+.||||+|++.|..++..++++++++|+|||++++.||+++ ..|
T Consensus        15 SLi~r~~~~~f~~-~~~Tig~~~~~~---~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l-~~~   89 (220)
T cd04126          15 SLLHRYMERRFKD-TVSTVGGAFYLK---QWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEEL-EDR   89 (220)
T ss_pred             HHHHHHhcCCCCC-CCCccceEEEEE---EeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            5789999999975 689998655421   12468899999999999999999999999999999999999999999 555


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccc---------cCCCCCccccHHHHHHHHHHhCC-------------CeEEE
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFF---------IDHPGAVPITTAQGEELRKLIGS-------------PAYIE  139 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~e  139 (179)
                      +..+.+.. +++|++|||||+|+.++....         ......+.++.+++..+++..+.             ..|+|
T Consensus        90 ~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E  169 (220)
T cd04126          90 FLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFE  169 (220)
T ss_pred             HHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEE
Confidence            55555443 579999999999997622110         00112467899999999998762             27999


Q ss_pred             eccCCCCcHHHHHHHHHHHHhC
Q 030337          140 CSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       140 ~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |||++|.||+++|..+++.++.
T Consensus       170 ~SA~tg~~V~elf~~i~~~~~~  191 (220)
T cd04126         170 TSAKTGYNVDELFEYLFNLVLP  191 (220)
T ss_pred             eeCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999997764

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=1.5e-29  Score=181.90  Aligned_cols=147  Identities=31%  Similarity=0.518  Sum_probs=129.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC----------CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD----------GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.++.++.|.+.+.||+|..+. +.+.++          +..+.++||||+|+++|..++..++++++++++|||+++
T Consensus        19 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   98 (180)
T cd04127          19 SFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTN   98 (180)
T ss_pred             HHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            578999999999999999996664 555554          467899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      ++||+++ ..|+..+....  ++.|+++||||+|+.+..          .++.+++.++++.+++ +++++||++|.|++
T Consensus        99 ~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~~~~v~  166 (180)
T cd04127          99 EQSFLNV-RNWMSQLQTHAYCENPDIVLCGNKADLEDQR----------QVSEEQAKALADKYGI-PYFETSAATGTNVE  166 (180)
T ss_pred             HHHHHHH-HHHHHHHHHhcCCCCCcEEEEEeCccchhcC----------ccCHHHHHHHHHHcCC-eEEEEeCCCCCCHH
Confidence            9999999 78999887654  578999999999997644          3777889999999998 89999999999999


Q ss_pred             HHHHHHHHHHhC
Q 030337          150 AVFDAAIKVVLQ  161 (179)
Q Consensus       150 ~~f~~l~~~i~~  161 (179)
                      ++|+++++.+++
T Consensus       167 ~l~~~l~~~~~~  178 (180)
T cd04127         167 KAVERLLDLVMK  178 (180)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.97  E-value=3.8e-29  Score=177.86  Aligned_cols=147  Identities=27%  Similarity=0.524  Sum_probs=131.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.|.||+|..+. ..+.+++..+.+++|||+|++++..++..+++++|++++|||++++.+|+.+ ..
T Consensus        18 sl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~-~~   96 (167)
T cd01867          18 CLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENI-RN   96 (167)
T ss_pred             HHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhH-HH
Confidence            578999999999999999996664 6777888889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++||||+|+.+...          +..+++..+++.+++ +++++||++|.|++++|+++++.+.
T Consensus        97 ~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~i~~~~~  165 (167)
T cd01867          97 WMRNIEEHASEDVERMLVGNKCDMEEKRV----------VSKEEGEALADEYGI-KFLETSAKANINVEEAFFTLAKDIK  165 (167)
T ss_pred             HHHHHHHhCCCCCcEEEEEECcccccccC----------CCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999888765 5799999999999976443          677888899999888 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       166 ~  166 (167)
T cd01867         166 K  166 (167)
T ss_pred             h
Confidence            4

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

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

Probab=99.97  E-value=3.8e-30  Score=172.32  Aligned_cols=148  Identities=27%  Similarity=0.478  Sum_probs=136.6

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      |+++|....|..+...|||+.|- ..+.+.|.+++++||||+|+|+|+...+.|++++-+.++|||++.+.+++.+ ..|
T Consensus        27 llhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstynhl-ssw  105 (215)
T KOG0097|consen   27 LLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHL-SSW  105 (215)
T ss_pred             HHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhhhH-HHH
Confidence            68999999999999999999886 5566889999999999999999999999999999999999999999999999 899


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +...+... ++..++++|||.|+..++.          +..+++++++++.|+ .|+|+||++|.|+++.|-...+++.+
T Consensus       106 l~dar~ltnpnt~i~lignkadle~qrd----------v~yeeak~faeengl-~fle~saktg~nvedafle~akkiyq  174 (215)
T KOG0097|consen  106 LTDARNLTNPNTVIFLIGNKADLESQRD----------VTYEEAKEFAEENGL-MFLEASAKTGQNVEDAFLETAKKIYQ  174 (215)
T ss_pred             HhhhhccCCCceEEEEecchhhhhhccc----------CcHHHHHHHHhhcCe-EEEEecccccCcHHHHHHHHHHHHHH
Confidence            99888776 7899999999999977664          999999999999999 89999999999999999999888876


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      +.
T Consensus       175 ni  176 (215)
T KOG0097|consen  175 NI  176 (215)
T ss_pred             hh
Confidence            43

>cd01865 Rab3 Rab3 subfamily

Probab=99.97  E-value=5.2e-29  Score=176.83  Aligned_cols=146  Identities=30%  Similarity=0.571  Sum_probs=130.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.|.||+|..+. +++..++..+.+++|||+|++++..++..++++++++++|||++++++|+.+ ..
T Consensus        16 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~-~~   94 (165)
T cd01865          16 SFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAV-QD   94 (165)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHH-HH
Confidence            578999999999999999996554 6677788889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |++.+.... ++.|+++||||+|+.+..          .+..+.+.++++.+++ +++++||++|.|++++|+++++.+.
T Consensus        95 ~~~~i~~~~~~~~piivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (165)
T cd01865          95 WSTQIKTYSWDNAQVILVGNKCDMEDER----------VVSSERGRQLADQLGF-EFFEASAKENINVKQVFERLVDIIC  163 (165)
T ss_pred             HHHHHHHhCCCCCCEEEEEECcccCccc----------ccCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            999988766 579999999999997644          3677788888888888 8999999999999999999998764

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.96  E-value=6.8e-29  Score=177.29  Aligned_cols=149  Identities=27%  Similarity=0.437  Sum_probs=128.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+++|+++.|.++|.||++..+. +.+.+++..+.++||||+|+++|..++..++++++++++|||++++.+|+.+ ..
T Consensus        15 sli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~-~~   93 (170)
T cd04108          15 CLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHT-RQ   93 (170)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            578999999999999999997765 7788899899999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-C-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-P-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.+.. + ++|+++||||+|+.....        .....+++..+++.++. +++++||++|.|++++|+.+++.+
T Consensus        94 ~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~--------~~~~~~~~~~~~~~~~~-~~~e~Sa~~g~~v~~lf~~l~~~~  164 (170)
T cd04108          94 WLEDALKENDPSSVLLFLVGTKKDLSSPAQ--------YALMEQDAIKLAAEMQA-EYWSVSALSGENVREFFFRVAALT  164 (170)
T ss_pred             HHHHHHHhcCCCCCeEEEEEEChhcCcccc--------ccccHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHH
Confidence            998876543 3 578999999999864321        12345677788888887 899999999999999999999987


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      .+
T Consensus       165 ~~  166 (170)
T cd04108         165 FE  166 (170)
T ss_pred             HH
Confidence            54

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

>cd04135 Tc10 TC10 subfamily

Probab=99.96  E-value=2.1e-28  Score=174.85  Aligned_cols=158  Identities=48%  Similarity=0.873  Sum_probs=135.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|..+.|.+.+.||+++.+...+.+++..+.+++|||+|++.|...+..++++++++++|||++++.+|+.+...|
T Consensus        15 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~   94 (174)
T cd04135          15 CLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEW   94 (174)
T ss_pred             HHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888878888999999999999999999999999999999999999999999999996679


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....++.|+++||||+|+.++....  ......+.++.+++..+++..+...++++||++|.|++++|+.+++.++
T Consensus        95 ~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~~  174 (174)
T cd04135          95 VPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAIL  174 (174)
T ss_pred             HHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHhC
Confidence            88887666789999999999986533110  0111223577888999999999878999999999999999999998763

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.96  E-value=1e-28  Score=179.45  Aligned_cols=148  Identities=32%  Similarity=0.577  Sum_probs=130.8

Q ss_pred             eeehhhhhCCCC-CcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|. +++.||++..+. +.+.+++..+.++||||+|++++...+..++++++++|+|||++++++|+++ .
T Consensus        15 Sli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~-~   93 (191)
T cd04112          15 CLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNI-R   93 (191)
T ss_pred             HHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHH-H
Confidence            478899999996 478999986665 5678899999999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           81 KWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        81 ~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .|+..+.... .++|+++||||+|+....          .+..+++..+++.++. +++++||++|.|++++|+++++.+
T Consensus        94 ~~~~~i~~~~~~~~piiiv~NK~Dl~~~~----------~~~~~~~~~l~~~~~~-~~~e~Sa~~~~~v~~l~~~l~~~~  162 (191)
T cd04112          94 AWLTEIKEYAQEDVVIMLLGNKADMSGER----------VVKREDGERLAKEYGV-PFMETSAKTGLNVELAFTAVAKEL  162 (191)
T ss_pred             HHHHHHHHhCCCCCcEEEEEEcccchhcc----------ccCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHH
Confidence            8999888776 479999999999996543          2677788899998887 899999999999999999999988


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      ...
T Consensus       163 ~~~  165 (191)
T cd04112         163 KHR  165 (191)
T ss_pred             HHh
Confidence            765

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.96  E-value=2.9e-28  Score=177.13  Aligned_cols=152  Identities=29%  Similarity=0.414  Sum_probs=131.4

Q ss_pred             eeehhhhhCCCCC-cccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQ-DYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~-~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|+++.|.. .|.||+|..+. +.+.+++..+.+++|||+|++++..++..++++++++++|||++++.+|+++ .
T Consensus        15 sLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~-~   93 (193)
T cd04118          15 SLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERA-K   93 (193)
T ss_pred             HHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHH-H
Confidence            5889999999985 79999997664 6788899999999999999999999999999999999999999999999998 7


Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           81 KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        81 ~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .|+..+....++.|+++|+||+|+....      ...+.+..+++..++...+. .++++||++|.|++++|+++++.+.
T Consensus        94 ~~~~~i~~~~~~~piilv~nK~Dl~~~~------~~~~~v~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~i~~~~~  166 (193)
T cd04118          94 FWVKELQNLEEHCKIYLCGTKSDLIEQD------RSLRQVDFHDVQDFADEIKA-QHFETSSKTGQNVDELFQKVAEDFV  166 (193)
T ss_pred             HHHHHHHhcCCCCCEEEEEEcccccccc------cccCccCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            8999988766689999999999986422      11234566778888888887 7999999999999999999999886


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      +.
T Consensus       167 ~~  168 (193)
T cd04118         167 SR  168 (193)
T ss_pred             Hh
Confidence            53

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.96  E-value=1.2e-28  Score=174.95  Aligned_cols=146  Identities=29%  Similarity=0.576  Sum_probs=131.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|...+.||++..+. +.+.+++..+.+++||++|++++..++..++++++++|+|||+++++||+.+ ..
T Consensus        17 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l-~~   95 (166)
T cd01869          17 CLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQ   95 (166)
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhH-HH
Confidence            578899999999999999986554 7788888899999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++||||+|+....          .+..+++..+++.+++ +++++||++|.|++++|+++++.+.
T Consensus        96 ~~~~~~~~~~~~~~~iiv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869          96 WLQEIDRYASENVNKLLVGNKCDLTDKR----------VVDYSEAQEFADELGI-PFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             HHHHHHHhCCCCCcEEEEEEChhccccc----------CCCHHHHHHHHHHcCC-eEEEEECCCCcCHHHHHHHHHHHHH
Confidence            999988776 579999999999986544          3777888999999998 8999999999999999999999875

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.96  E-value=1.5e-28  Score=173.46  Aligned_cols=141  Identities=26%  Similarity=0.299  Sum_probs=119.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.+.+.|+ +..+.+.+.+++..+.++||||+|++.     ..+++++|++++|||++++.||+++ ..|
T Consensus        15 sli~~~~~~~f~~~~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf~~~-~~~   87 (158)
T cd04103          15 ALVHRYLTGSYVQLESPE-GGRFKKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASFQTV-YNL   87 (158)
T ss_pred             HHHHHHHhCCCCCCCCCC-ccceEEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            478899999999888777 445567788999999999999999975     3467899999999999999999999 689


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..+....  +++|+++||||.|+...        ..+.++.+++.++++..+...|+||||++|.||+++|+.+++.
T Consensus        88 ~~~i~~~~~~~~~piilvgnK~Dl~~~--------~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          88 YHQLSSYRNISEIPLILVGTQDAISES--------NPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHhcCCCCCCEEEEeeHHHhhhc--------CCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            99888765  57999999999998531        1235888888999988753489999999999999999999865

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.

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

Probab=99.96  E-value=3e-28  Score=173.29  Aligned_cols=145  Identities=26%  Similarity=0.422  Sum_probs=126.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. ..+..++..+.+.+|||+|++.+..++..+++++|++|+|||++++++|+.+ ..
T Consensus        15 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   93 (166)
T cd00877          15 TFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNV-PN   93 (166)
T ss_pred             HHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            578899999999999999986554 5566688889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.....++|+++||||+|+....           +. .++.++++..++ .++++||++|.|++++|++|++.+.+
T Consensus        94 ~~~~i~~~~~~~piiiv~nK~Dl~~~~-----------~~-~~~~~~~~~~~~-~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877          94 WHRDLVRVCGNIPIVLCGNKVDIKDRK-----------VK-AKQITFHRKKNL-QYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             HHHHHHHhCCCCcEEEEEEchhccccc-----------CC-HHHHHHHHHcCC-EEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            999998877789999999999997322           33 234566666666 89999999999999999999998875

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

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

Probab=99.96  E-value=2e-28  Score=172.53  Aligned_cols=144  Identities=33%  Similarity=0.555  Sum_probs=128.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++++.|.+++.||+++.+.+.+.+++..+.+++|||+|++++..++..++++++++++|||++++.+|+++ ..|
T Consensus        16 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~-~~~   94 (162)
T cd04138          16 ALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDI-HTY   94 (162)
T ss_pred             HHHHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            5789999999999999999988888888999899999999999999999999999999999999999999999998 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+.+..  .+.|+++|+||+|+....           +...++..+++..+. +++++||++|.|++++|+++++.+
T Consensus        95 ~~~i~~~~~~~~~piivv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138          95 REQIKRVKDSDDVPMVLVGNKCDLAART-----------VSSRQGQDLAKSYGI-PYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             HHHHHHhcCCCCCCEEEEEECcccccce-----------ecHHHHHHHHHHhCC-eEEEecCCCCCCHHHHHHHHHHHh
Confidence            87777654  479999999999996532           667788888888888 899999999999999999998754

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.96  E-value=1.8e-28  Score=174.07  Aligned_cols=144  Identities=24%  Similarity=0.415  Sum_probs=127.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||++..+.+.+..++..+.+++|||+|+++|..++..++++++++|+|||++++.+|+.+ ..|
T Consensus        16 sli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   94 (165)
T cd04140          16 SLVLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEEL-KPI   94 (165)
T ss_pred             HHHHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788999999999999999988877778888889999999999999999988999999999999999999999998 778


Q ss_pred             HHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..++...    ++.|+++||||+|+....          .+..+++..++..+++ .++++||++|.|++++|++|++.
T Consensus        95 ~~~i~~~~~~~~~~~piilv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140          95 YELICEIKGNNIEKIPIMLVGNKCDESHKR----------EVSSNEGAACATEWNC-AFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             HHHHHHHhcCCCCCCCEEEEEECccccccC----------eecHHHHHHHHHHhCC-cEEEeecCCCCCHHHHHHHHHhc
Confidence            77776542    479999999999996533          3777788888888887 89999999999999999999753

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.96  E-value=3.9e-28  Score=172.82  Aligned_cols=147  Identities=27%  Similarity=0.494  Sum_probs=131.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|.++.|.+.+.||++..+.+.+.+++..+.+++|||+|+++|..+++.++++++++++|||++++++++.+ ..|
T Consensus        16 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~-~~~   94 (168)
T cd04177          16 ALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNEL-GEL   94 (168)
T ss_pred             HHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788999999999999999988888888899999999999999999999999999999999999999999999999 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+.+..  .+.|+++++||.|+....          .++.+++..+++.++..+++++||++|.|++++|++++++++
T Consensus        95 ~~~i~~~~~~~~~piiiv~nK~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177          95 REQVLRIKDSDNVPMVLVGNKADLEDDR----------QVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             HHHHHHhhCCCCCCEEEEEEChhccccC----------ccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            88877543  479999999999996543          367777888888888448999999999999999999998876

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.96  E-value=8.9e-28  Score=171.79  Aligned_cols=157  Identities=45%  Similarity=0.836  Sum_probs=133.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|.++.|.+.|.||+++.+.+.+.++++.+.+.+|||+|++.|..++..++++++++++|||++++++|+++...|
T Consensus        16 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~   95 (175)
T cd01870          16 CLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKW   95 (175)
T ss_pred             HHHHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47899999999999999999888778888999999999999999999999889999999999999999999999986679


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+.+..++.|+++|+||.|+.......  ........+...++.++++..+...+++|||++|.|++++|+++++.+
T Consensus        96 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870          96 TPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             HHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            88888766789999999999986532110  001122346678889999988877899999999999999999998754

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.96  E-value=3.8e-28  Score=173.00  Aligned_cols=145  Identities=30%  Similarity=0.521  Sum_probs=127.9

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|+.+.|.+.+.||+|..+ .+.+.++++.+.++|||++|++++..++..++++++++++|||++++++|+.+ ..
T Consensus        20 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   98 (170)
T cd04116          20 SLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNL-SN   98 (170)
T ss_pred             HHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhH-HH
Confidence            57889999999999999999665 47788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |...+....     .+.|+++||||.|+.. .          .++.+++.++++.++...++++||++|.|+.++|++++
T Consensus        99 ~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-~----------~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~  167 (170)
T cd04116          99 WKKEFIYYADVKEPESFPFVVLGNKNDIPE-R----------QVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAV  167 (170)
T ss_pred             HHHHHHHhcccccCCCCcEEEEEECccccc-c----------ccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            988776543     3689999999999863 2          36778899999998876899999999999999999998


Q ss_pred             HHH
Q 030337          157 KVV  159 (179)
Q Consensus       157 ~~i  159 (179)
                      +.+
T Consensus       168 ~~~  170 (170)
T cd04116         168 RRV  170 (170)
T ss_pred             hhC
Confidence            753

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.96  E-value=3e-28  Score=172.01  Aligned_cols=144  Identities=30%  Similarity=0.480  Sum_probs=129.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEEC--CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVD--GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|+.++..+.|.+++.||++..+ .+.+.++  +..+.++||||+|+++|..++..++++++++++|||++++++|+.+ 
T Consensus        15 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l-   93 (162)
T cd04106          15 SMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAI-   93 (162)
T ss_pred             HHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHH-
Confidence            57899999999999999998666 4667776  7789999999999999999999999999999999999999999998 


Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           80 KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        80 ~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ..|+..+....+++|+++|+||.|+..+..          ++.+++..+++.+++ +++++||++|.|++++|++|...
T Consensus        94 ~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106          94 ESWKEKVEAECGDIPMVLVQTKIDLLDQAV----------ITNEEAEALAKRLQL-PLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHHhCCCCCEEEEEEChhcccccC----------CCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHh
Confidence            789998887777899999999999976443          777888999999998 89999999999999999998753

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.96  E-value=3.9e-28  Score=171.97  Aligned_cols=146  Identities=19%  Similarity=0.410  Sum_probs=130.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. +.+.+++..+.+++|||+|++.+..++..++++++++|+|||++++.+|+.+ ..
T Consensus        15 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~-~~   93 (168)
T cd04119          15 CIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEAL-DS   93 (168)
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhH-HH
Confidence            578899999999999999997664 7788889999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC------CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           82 WIPELRHYA------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        82 ~~~~i~~~~------~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      |+..+.+..      .+.|+++|+||+|+.++.          .++.+++..+++..+. +++++||++|.|++++|++|
T Consensus        94 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l  162 (168)
T cd04119          94 WLKEMKQEGGPHGNMENIVVVVCANKIDLTKHR----------AVSEDEGRLWAESKGF-KYFETSACTGEGVNEMFQTL  162 (168)
T ss_pred             HHHHHHHhccccccCCCceEEEEEEchhccccc----------ccCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHH
Confidence            998887664      268999999999996433          3678888888888886 89999999999999999999


Q ss_pred             HHHHh
Q 030337          156 IKVVL  160 (179)
Q Consensus       156 ~~~i~  160 (179)
                      ++.++
T Consensus       163 ~~~l~  167 (168)
T cd04119         163 FSSIV  167 (168)
T ss_pred             HHHHh
Confidence            99876

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.96  E-value=1.6e-27  Score=172.60  Aligned_cols=159  Identities=43%  Similarity=0.712  Sum_probs=134.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+...+.+++..+.+.+||++|++.+....+.+++++++++++||++++++|+.+...|
T Consensus        16 tLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~   95 (187)
T cd04129          16 SLLSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKW   95 (187)
T ss_pred             HHHHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            46788889999999999998888878888898899999999999998888778899999999999999999999995579


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +..+++..++.|+++||||+|+.++..........+.++.+.+..+++..+...+++|||++|.|++++|+++.+.++.
T Consensus        96 ~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  174 (187)
T cd04129          96 IEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALL  174 (187)
T ss_pred             HHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhc
Confidence            9999877778999999999998643210001112345667788999999997789999999999999999999987754

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).

>cd01864 Rab19 Rab19 subfamily

Probab=99.96  E-value=4.4e-28  Score=171.97  Aligned_cols=145  Identities=28%  Similarity=0.451  Sum_probs=129.3

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.+.||++..+ .+.+.+++..+.++||||||++++..++..+++++|++++|||++++.+|+.+ ..
T Consensus        18 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~-~~   96 (165)
T cd01864          18 CVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESV-PH   96 (165)
T ss_pred             HHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhH-HH
Confidence            47889999999999999998655 47788888889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      |+..+.... .++|+++|+||+|+....          ++..+++..+++..+...++++||++|.|++++|+++.+.
T Consensus        97 ~~~~i~~~~~~~~p~ivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864          97 WIEEVEKYGASNVVLLLIGNKCDLEEQR----------EVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             HHHHHHHhCCCCCcEEEEEECccccccc----------ccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            999987755 579999999999997544          3777888999999887789999999999999999999875

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.96  E-value=3.6e-28  Score=179.81  Aligned_cols=147  Identities=27%  Similarity=0.479  Sum_probs=132.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|..+.|..++.||+|..+ .+.+.+++..+.++||||+|++++..++..++++++++|+|||++++.+|+.+ ..
T Consensus        27 tLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~  105 (216)
T PLN03110         27 NILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNV-QR  105 (216)
T ss_pred             HHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHH-HH
Confidence            47889999999999999999666 47888899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .++|+++||||+|+....          .++.+.+..++...++ +++++||++|.|++++|++++..+.
T Consensus       106 ~~~~~~~~~~~~~piiiv~nK~Dl~~~~----------~~~~~~~~~l~~~~~~-~~~e~SA~~g~~v~~lf~~l~~~i~  174 (216)
T PLN03110        106 WLRELRDHADSNIVIMMAGNKSDLNHLR----------SVAEEDGQALAEKEGL-SFLETSALEATNVEKAFQTILLEIY  174 (216)
T ss_pred             HHHHHHHhCCCCCeEEEEEEChhccccc----------CCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999888776 479999999999996544          3777888999988887 8999999999999999999998775


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       175 ~  175 (216)
T PLN03110        175 H  175 (216)
T ss_pred             H
Confidence            4

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.96  E-value=5.7e-28  Score=170.98  Aligned_cols=146  Identities=30%  Similarity=0.535  Sum_probs=130.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+.+.+.+++..+.+++|||+|++++..++..++++++++++|||++++++|+.+ ..|
T Consensus        15 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   93 (164)
T smart00173       15 ALTIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEI-KKF   93 (164)
T ss_pred             HHHHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888899999999999999999999999999999999999999999999999 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+.+..  .+.|+++||||+|+.++..          ++.+.+..+++..+. +++++||++|.|++++|+++++.+.
T Consensus        94 ~~~i~~~~~~~~~pii~v~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173       94 REQILRVKDRDDVPIVLVGNKCDLESERV----------VSTEEGKELARQWGC-PFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             HHHHHHhcCCCCCCEEEEEECccccccce----------EcHHHHHHHHHHcCC-EEEEeecCCCCCHHHHHHHHHHHHh
Confidence            77776543  4799999999999976442          677788888888886 8999999999999999999998765

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.96  E-value=6.9e-28  Score=181.27  Aligned_cols=148  Identities=26%  Similarity=0.334  Sum_probs=127.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+++.|.++|.||+++.+.+.+.++++.+.++||||+|++.|..++..++.++|++|+|||+++++||+++ ..|
T Consensus        15 SLi~r~~~~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i-~~~   93 (247)
T cd04143          15 AIVSRFLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEV-CRL   93 (247)
T ss_pred             HHHHHHHcCCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHH-HHH
Confidence            5789999999999999999988888888999999999999999999998888899999999999999999999999 788


Q ss_pred             HHHHhhc----------CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           83 IPELRHY----------APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        83 ~~~i~~~----------~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      ...+...          ..+.|+++||||+|+....          .+..+++.+++.......++++||++|.|++++|
T Consensus        94 ~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~----------~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf  163 (247)
T cd04143          94 REQILETKSCLKNKTKENVKIPMVICGNKADRDFPR----------EVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMF  163 (247)
T ss_pred             HHHHHHhhcccccccccCCCCcEEEEEECccchhcc----------ccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            7777542          2479999999999996533          3677777777664423389999999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      ++|+..+..
T Consensus       164 ~~L~~~~~~  172 (247)
T cd04143         164 RALFSLAKL  172 (247)
T ss_pred             HHHHHHhcc
Confidence            999997643

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

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

Probab=99.96  E-value=7.2e-28  Score=170.29  Aligned_cols=145  Identities=32%  Similarity=0.536  Sum_probs=129.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|..++.||+++.+.+.+.+++..+.+++|||||++++..++..++++++++++|||++++.+|+.+ ..|
T Consensus        17 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   95 (164)
T cd04145          17 ALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEV-DKF   95 (164)
T ss_pred             HHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888899999999999999999999999999999999999999999999999 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+.+..  .+.|+++++||+|+....          .+..+++..+++..+. +++++||++|.|++++|+++++.+
T Consensus        96 ~~~~~~~~~~~~~piiiv~NK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145          96 HTQILRVKDRDEFPMILVGNKADLEHQR----------KVSREEGQELARKLKI-PYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHHhCCCCCCEEEEeeCccccccc----------eecHHHHHHHHHHcCC-cEEEeeCCCCCCHHHHHHHHHHhh
Confidence            88777643  579999999999996544          3677788889988887 899999999999999999998754

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.96  E-value=1.3e-27  Score=169.09  Aligned_cols=144  Identities=28%  Similarity=0.424  Sum_probs=125.2

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||.+..+ .+.+.+++..+.+++|||+|+++|..++..+++++|++++|||++++.+++++ ..
T Consensus        15 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   93 (161)
T cd04124          15 KLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNL-SK   93 (161)
T ss_pred             HHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHH-HH
Confidence            57889999999999999987544 45677788899999999999999999999999999999999999999999998 79


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.+..++.|+++|+||+|+..             ....+...+++..++ +++++||++|.|++++|+.+++.+.+
T Consensus        94 ~~~~i~~~~~~~p~ivv~nK~Dl~~-------------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~~~~  159 (161)
T cd04124          94 WYEELREYRPEIPCIVVANKIDLDP-------------SVTQKKFNFAEKHNL-PLYYVSAADGTNVVKLFQDAIKLAVS  159 (161)
T ss_pred             HHHHHHHhCCCCcEEEEEECccCch-------------hHHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999987767899999999999843             122445567777776 89999999999999999999988765

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.96  E-value=5.4e-28  Score=178.23  Aligned_cols=148  Identities=30%  Similarity=0.471  Sum_probs=130.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+++++.|.+.+.||+|..+ .+.+.+ ++..+.+++|||+|++++..++..++++++++++|||++++.||+++ .
T Consensus        17 sLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l-~   95 (211)
T cd04111          17 SLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHV-H   95 (211)
T ss_pred             HHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHH-H
Confidence            57899999999999999998555 466766 56789999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .|+..+.+..  ..+|++|||||+|+....          .++.+++..+++.+++ .++++||++|.|++++|++|++.
T Consensus        96 ~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~g~~v~e~f~~l~~~  164 (211)
T cd04111          96 DWLEEARSHIQPHRPVFILVGHKCDLESQR----------QVTREEAEKLAKDLGM-KYIETSARTGDNVEEAFELLTQE  164 (211)
T ss_pred             HHHHHHHHhcCCCCCeEEEEEEcccccccc----------ccCHHHHHHHHHHhCC-EEEEEeCCCCCCHHHHHHHHHHH
Confidence            8998887654  357899999999997644          3788889999999996 89999999999999999999998


Q ss_pred             HhCC
Q 030337          159 VLQP  162 (179)
Q Consensus       159 i~~~  162 (179)
                      +.+.
T Consensus       165 ~~~~  168 (211)
T cd04111         165 IYER  168 (211)
T ss_pred             HHHH
Confidence            7654

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.

>cd04142 RRP22 RRP22 subfamily

Probab=99.96  E-value=1.7e-27  Score=173.86  Aligned_cols=165  Identities=21%  Similarity=0.305  Sum_probs=128.7

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCcccccc--------CcccccCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRL--------RPLSYRGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~~~~i~v~d~~~~~   73 (179)
                      +|+.+|+.+.|.+.|.||++..+ .+.+.++++.+.++||||+|.+.+...        ....++++|++|+|||++++.
T Consensus        15 sLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~   94 (198)
T cd04142          15 AIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPD   94 (198)
T ss_pred             HHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHH
Confidence            57889999999999999998554 466778999999999999997655322        223578999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-HhCCCeEEEeccCCCCcH
Q 030337           74 SYENVAKKWIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-LIGSPAYIECSSKTQQNV  148 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~Sa~~~~~i  148 (179)
                      ||+.+ ..|...+....    .++|+++||||+|+....          .++.+.+..+++ ..++ +|+++||++|.|+
T Consensus        95 S~~~~-~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~----------~~~~~~~~~~~~~~~~~-~~~e~Sak~g~~v  162 (198)
T cd04142          95 SFHYV-KLLRQQILETRPAGNKEPPIVVVGNKRDQQRHR----------FAPRHVLSVLVRKSWKC-GYLECSAKYNWHI  162 (198)
T ss_pred             HHHHH-HHHHHHHHHhcccCCCCCCEEEEEECccccccc----------cccHHHHHHHHHHhcCC-cEEEecCCCCCCH
Confidence            99998 78887776542    579999999999996543          256666666655 4566 8999999999999


Q ss_pred             HHHHHHHHHHHhCCchhhh-----hccCCCCCcccC
Q 030337          149 KAVFDAAIKVVLQPPKQKK-----KKKKSHRACSIL  179 (179)
Q Consensus       149 ~~~f~~l~~~i~~~~~~~~-----~~~~~~~~c~~~  179 (179)
                      +++|+.+++.++.+.+...     ++.--...|.||
T Consensus       163 ~~lf~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (198)
T cd04142         163 LLLFKELLISATTRGRSTHPALRLQGALHRERCSIM  198 (198)
T ss_pred             HHHHHHHHHHhhccCCCccHHHHHHHHHhhcCcccC
Confidence            9999999998886544422     222223458876

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.95  E-value=2.1e-27  Score=169.12  Aligned_cols=147  Identities=25%  Similarity=0.480  Sum_probs=131.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||+|..+. ..+.+++..+.+.||||+|++++..++..++++++++++|||++++.+|+.+ ..
T Consensus        19 sLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~-~~   97 (168)
T cd01866          19 CLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL-TS   97 (168)
T ss_pred             HHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            578899999999999999986664 6677888889999999999999999888999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..++... ++.|+++||||.|+....          .++.+++..++...+. .++++||+++.|++++|.++++.+.
T Consensus        98 ~~~~~~~~~~~~~pvivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~e~Sa~~~~~i~~~~~~~~~~~~  166 (168)
T cd01866          98 WLEDARQHSNSNMTIMLIGNKCDLESRR----------EVSYEEGEAFAKEHGL-IFMETSAKTASNVEEAFINTAKEIY  166 (168)
T ss_pred             HHHHHHHhCCCCCcEEEEEECccccccc----------CCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999887765 689999999999997544          3778888899998888 8999999999999999999998876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       167 ~  167 (168)
T cd01866         167 E  167 (168)
T ss_pred             h
Confidence            4

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

>cd01868 Rab11_like Rab11-like

Probab=99.95  E-value=2.1e-27  Score=168.29  Aligned_cols=145  Identities=30%  Similarity=0.511  Sum_probs=129.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||++..+ .+.+..++..+.+++||++|++++..++..++++++++|+|||++++.+|+++ ..
T Consensus        18 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   96 (165)
T cd01868          18 NLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENV-ER   96 (165)
T ss_pred             HHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999999665 47788888889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCC-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.+..+ ++|+++||||+|+....          .+..++...++...++ .++++||++|.|++++|++++..+
T Consensus        97 ~~~~~~~~~~~~~pi~vv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868          97 WLKELRDHADSNIVIMLVGNKSDLRHLR----------AVPTEEAKAFAEKNGL-SFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             HHHHHHHhCCCCCeEEEEEECccccccc----------cCCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHh
Confidence            9998887764 69999999999997544          3677788888888887 899999999999999999998765

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.95  E-value=2.4e-27  Score=169.09  Aligned_cols=147  Identities=19%  Similarity=0.195  Sum_probs=126.0

Q ss_pred             eeehhhhhCCCC-CcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.||+.+.|. ++|.||++..+. +.+.+++..+.+.+||++|++.+..++..+++++|++++|||++++.+|+.+ .
T Consensus        19 sli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~-~   97 (169)
T cd01892          19 ALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYC-A   97 (169)
T ss_pred             HHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHH-H
Confidence            578999999999 999999998775 6678889889999999999999999999999999999999999999999988 7


Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           81 KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        81 ~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .|+..+... .++|+++|+||+|+.+...          +...++.++++.++...++++||++|.|++++|+.+++.+.
T Consensus        98 ~~~~~~~~~-~~~p~iiv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892          98 EVYKKYFML-GEIPCLFVAAKADLDEQQQ----------RYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             HHHHHhccC-CCCeEEEEEEccccccccc----------ccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            888766432 3799999999999965332          33445677788888755799999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       167 ~  167 (169)
T cd01892         167 Y  167 (169)
T ss_pred             C
Confidence            5

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.95  E-value=3.2e-27  Score=166.76  Aligned_cols=145  Identities=29%  Similarity=0.480  Sum_probs=129.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.+.||++..+. ..+.+++..+.+++||++|++.|..++..++++++++++|||++++.+|+.+ ..
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   93 (161)
T cd04113          15 CLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEAL-PT   93 (161)
T ss_pred             HHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            578999999999999999986654 6677888889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..++... ++.|+++|+||.|+....          .++.+++..+++..++ .++++||+++.|++++|+++++.+
T Consensus        94 ~~~~~~~~~~~~~~iivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~~~~~~~~~~  161 (161)
T cd04113          94 WLSDARALASPNIVVILVGNKSDLADQR----------EVTFLEASRFAQENGL-LFLETSALTGENVEEAFLKCARSI  161 (161)
T ss_pred             HHHHHHHhCCCCCeEEEEEEchhcchhc----------cCCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHhC
Confidence            988887665 689999999999997644          3778889999999996 899999999999999999998753

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.95  E-value=4e-27  Score=167.98  Aligned_cols=145  Identities=26%  Similarity=0.427  Sum_probs=128.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCcccc-ccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYN-RLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|.+.+.||++..+. +.+.+++..+.++||||+|+++++ .++..+++++|++++|||++++.+|+.+ .
T Consensus        17 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~   95 (170)
T cd04115          17 CLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSL-P   95 (170)
T ss_pred             HHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhH-H
Confidence            578899999999999999986554 778889999999999999999887 5788899999999999999999999999 7


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCC---CCcHHHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKT---QQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~---~~~i~~~f~~l  155 (179)
                      .|+..+....  .++|+++|+||+|+.....          ++.+++.++++..++ +++++||++   +.++.++|..+
T Consensus        96 ~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~~~~~~~i~~~f~~l  164 (170)
T cd04115          96 SWIEECEQHSLPNEVPRILVGNKCDLREQIQ----------VPTDLAQRFADAHSM-PLFETSAKDPSENDHVEAIFMTL  164 (170)
T ss_pred             HHHHHHHHhcCCCCCCEEEEEECccchhhcC----------CCHHHHHHHHHHcCC-cEEEEeccCCcCCCCHHHHHHHH
Confidence            8998888765  5799999999999976543          778888999999887 899999999   89999999999


Q ss_pred             HHHH
Q 030337          156 IKVV  159 (179)
Q Consensus       156 ~~~i  159 (179)
                      ++.+
T Consensus       165 ~~~~  168 (170)
T cd04115         165 AHKL  168 (170)
T ss_pred             HHHh
Confidence            9865

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.95  E-value=2.7e-27  Score=167.93  Aligned_cols=146  Identities=28%  Similarity=0.442  Sum_probs=126.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccc-cccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-NRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++++.|.++|.||.+..+.+.+.++++.+.+++|||+|++++ ...+..+++++|++|+|||++++.||+.+ ..
T Consensus        14 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   92 (165)
T cd04146          14 ALVVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEI-SQ   92 (165)
T ss_pred             HHHHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHH-HH
Confidence            57889999999999999998777777888999999999999999863 44567789999999999999999999999 78


Q ss_pred             HHHHHhhcC---CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCC-CcHHHHHHHHHH
Q 030337           82 WIPELRHYA---PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQ-QNVKAVFDAAIK  157 (179)
Q Consensus        82 ~~~~i~~~~---~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~~i~~~f~~l~~  157 (179)
                      |+..+....   .+.|+++||||+|+....          .++.+++..+++..+. .++++||++| .|++++|+.+++
T Consensus        93 ~~~~~~~~~~~~~~~piilv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sa~~~~~~v~~~f~~l~~  161 (165)
T cd04146          93 LKQLIREIKKRDREIPVILVGNKADLLHYR----------QVSTEEGEKLASELGC-LFFEVSAAEDYDGVHSVFHELCR  161 (165)
T ss_pred             HHHHHHHHhcCCCCCCEEEEEECCchHHhC----------ccCHHHHHHHHHHcCC-EEEEeCCCCCchhHHHHHHHHHH
Confidence            888877653   379999999999986544          3778888999999997 8999999999 599999999998


Q ss_pred             HHh
Q 030337          158 VVL  160 (179)
Q Consensus       158 ~i~  160 (179)
                      .+.
T Consensus       162 ~~~  164 (165)
T cd04146         162 EVR  164 (165)
T ss_pred             HHh
Confidence            664

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

>PLN03108 Rab family protein; Provisional

Probab=99.95  E-value=4.1e-27  Score=173.46  Aligned_cols=148  Identities=26%  Similarity=0.476  Sum_probs=132.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. +.+.+++..+.+++|||+|++.+..++..++++++++|+|||++++.+|+.+ ..
T Consensus        21 tLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l-~~   99 (210)
T PLN03108         21 CLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL-AS   99 (210)
T ss_pred             HHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHH-HH
Confidence            478899999999999999986664 6788899899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+....          .++.+++.++++.+++ .++++||+++.|++++|+++++.++
T Consensus       100 ~~~~~~~~~~~~~piiiv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~e~Sa~~~~~v~e~f~~l~~~~~  168 (210)
T PLN03108        100 WLEDARQHANANMTIMLIGNKCDLAHRR----------AVSTEEGEQFAKEHGL-IFMEASAKTAQNVEEAFIKTAAKIY  168 (210)
T ss_pred             HHHHHHHhcCCCCcEEEEEECccCcccc----------CCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988776654 579999999999997644          3788899999999998 8999999999999999999999887


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ++
T Consensus       169 ~~  170 (210)
T PLN03108        169 KK  170 (210)
T ss_pred             HH
Confidence            54

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.95  E-value=1.1e-26  Score=164.40  Aligned_cols=145  Identities=27%  Similarity=0.446  Sum_probs=124.5

Q ss_pred             eeehhhhhC--CCCCcccCceeecee-eEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHH
Q 030337            3 FIYIICNYS--LGKQDYVPTVFDNFS-ANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV   78 (179)
Q Consensus         3 ~l~~~~~~~--~f~~~~~pt~~~~~~-~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   78 (179)
                      +|+.++.++  .|.++|.||+|..+. +.+.++ +..+.+.+|||+|++.+..++..+++++|++++|||++++.+|+.+
T Consensus        15 sl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~   94 (164)
T cd04101          15 AFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENC   94 (164)
T ss_pred             HHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHH
Confidence            467788765  799999999986654 556664 5779999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           79 AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        79 ~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                       ..|+..+.....+.|+++||||+|+.+...          +....+..++..+++ .++++||++|.|++++|+.+++.
T Consensus        95 -~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~  162 (164)
T cd04101          95 -SRWVNKVRTASKHMPGVLVGNKMDLADKAE----------VTDAQAQAFAQANQL-KFFKTSALRGVGYEEPFESLARA  162 (164)
T ss_pred             -HHHHHHHHHhCCCCCEEEEEECcccccccC----------CCHHHHHHHHHHcCC-eEEEEeCCCCCChHHHHHHHHHH
Confidence             799998887766799999999999966443          666667777777787 79999999999999999999986


Q ss_pred             H
Q 030337          159 V  159 (179)
Q Consensus       159 i  159 (179)
                      +
T Consensus       163 ~  163 (164)
T cd04101         163 F  163 (164)
T ss_pred             h
Confidence            5

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.

>cd04148 RGK RGK subfamily

Probab=99.94  E-value=6.3e-26  Score=168.31  Aligned_cols=145  Identities=23%  Similarity=0.332  Sum_probs=124.0

Q ss_pred             eeehhhhhCCCC-CcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccccCccccc-CccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR-GADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|+.+|..+.|. ..+.||++ +.+.+++.+++..+.+.+|||+|++.  .....+++ ++|++++|||++++.+|+.+ 
T Consensus        15 sLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~S~~~~-   91 (221)
T cd04148          15 SLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRSSFERA-   91 (221)
T ss_pred             HHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHHHHHHH-
Confidence            578899999997 88899987 56668888999999999999999982  23345666 99999999999999999998 


Q ss_pred             HHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           80 KKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        80 ~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ..|+..+....  .+.|+++|+||+|+....          .++.+++..++..+++ .++++||++|.||+++|+++++
T Consensus        92 ~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~e~SA~~~~gv~~l~~~l~~  160 (221)
T cd04148          92 SELRIQLRRNRQLEDRPIILVGNKSDLARSR----------EVSVQEGRACAVVFDC-KFIETSAGLQHNVDELLEGIVR  160 (221)
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEEChhccccc----------eecHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHHHH
Confidence            78888887654  479999999999996544          3777788888888887 8999999999999999999999


Q ss_pred             HHhC
Q 030337          158 VVLQ  161 (179)
Q Consensus       158 ~i~~  161 (179)
                      ++..
T Consensus       161 ~~~~  164 (221)
T cd04148         161 QIRL  164 (221)
T ss_pred             HHHh
Confidence            8863

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

>PLN03118 Rab family protein; Provisional

Probab=99.94  E-value=8.2e-26  Score=166.62  Aligned_cols=149  Identities=29%  Similarity=0.550  Sum_probs=127.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.| +.+.||.|..+. +.+.+++..+.+.||||+|+++|..++..++++++++|+|||++++++|+.+...
T Consensus        29 sli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~  107 (211)
T PLN03118         29 SLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDV  107 (211)
T ss_pred             HHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHH
Confidence            46788888888 568899986654 6677888889999999999999999999999999999999999999999999556


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |...+....  .+.|+++||||+|+....          .++.+++..+++..++ .++++||++|.|++++|++|.+.+
T Consensus       108 ~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~----------~i~~~~~~~~~~~~~~-~~~e~SAk~~~~v~~l~~~l~~~~  176 (211)
T PLN03118        108 WGKEVELYSTNQDCVKMLVGNKVDRESER----------DVSREEGMALAKEHGC-LFLECSAKTRENVEQCFEELALKI  176 (211)
T ss_pred             HHHHHHHhcCCCCCCEEEEEECccccccC----------ccCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHH
Confidence            777766543  368999999999997544          3677788888888887 899999999999999999999988


Q ss_pred             hCCc
Q 030337          160 LQPP  163 (179)
Q Consensus       160 ~~~~  163 (179)
                      ...+
T Consensus       177 ~~~~  180 (211)
T PLN03118        177 MEVP  180 (211)
T ss_pred             Hhhh
Confidence            7654

>cd01861 Rab6 Rab6 subfamily

Probab=99.94  E-value=7.6e-26  Score=159.54  Aligned_cols=144  Identities=33%  Similarity=0.557  Sum_probs=127.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|...+.|+.+..+ .+.+.+++..+.+++|||||++++..++..++++++++++|||++++++|+.+ ..
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~   93 (161)
T cd01861          15 SIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNT-DK   93 (161)
T ss_pred             HHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            57899999999999999998544 57788888889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      |+..+.... .+.|+++++||+|+....          .+..++...+++..+. .++++||+++.|++++|+++.+.
T Consensus        94 ~~~~~~~~~~~~~~iilv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          94 WIDDVRDERGNDVIIVLVGNKTDLSDKR----------QVSTEEGEKKAKELNA-MFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHHHhCCCCCEEEEEEEChhccccC----------ccCHHHHHHHHHHhCC-EEEEEeCCCCCCHHHHHHHHHHh
Confidence            988887655 369999999999996433          3677888888888887 89999999999999999999875

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.94  E-value=1.3e-25  Score=158.63  Aligned_cols=145  Identities=33%  Similarity=0.556  Sum_probs=129.3

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||.|..+ .+.+.+++..+.+.|||++|++++...+..++++++++++|||++++.+|+.+ ..
T Consensus        16 sli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   94 (163)
T cd01860          16 SLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKA-KS   94 (163)
T ss_pred             HHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999988999999766 47888899999999999999999999998999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.... +++|+++++||+|+....          .++.+++..+++..+. .++++||++|.|+.++|+++++.+
T Consensus        95 ~~~~~~~~~~~~~~iivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860          95 WVKELQRNASPNIIIALVGNKADLESKR----------QVSTEEAQEYADENGL-LFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHhCCCCCeEEEEEECccccccC----------cCCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHh
Confidence            988887766 679999999999987533          2677788888998886 899999999999999999999875

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.94  E-value=1.7e-25  Score=159.25  Aligned_cols=149  Identities=28%  Similarity=0.492  Sum_probs=128.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|++++.++.|.+.+.||++..+. +.+.+++..+.+++||++|++.+..++..++++++++|+|||++++.+++.+ ..
T Consensus        15 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~-~~   93 (172)
T cd01862          15 SLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESL-DS   93 (172)
T ss_pred             HHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            578999999999999999985554 6778888899999999999999999999999999999999999999999988 77


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |...+....     .+.|+++|+||+|+....          .+..+....+++..+...++++||++|.|++++|++++
T Consensus        94 ~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~  163 (172)
T cd01862          94 WRDEFLIQASPSDPENFPFVVLGNKIDLEEKR----------QVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIA  163 (172)
T ss_pred             HHHHHHHhcCccCCCCceEEEEEECccccccc----------ccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHH
Confidence            877665443     279999999999997433          25677778888888855899999999999999999999


Q ss_pred             HHHhCC
Q 030337          157 KVVLQP  162 (179)
Q Consensus       157 ~~i~~~  162 (179)
                      +.+++.
T Consensus       164 ~~~~~~  169 (172)
T cd01862         164 RKALEQ  169 (172)
T ss_pred             HHHHhc
Confidence            988765

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-

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

Probab=99.94  E-value=1.5e-28  Score=170.56  Aligned_cols=147  Identities=28%  Similarity=0.395  Sum_probs=137.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      ++++||+.|.|..+|.-|||..|. ..+.++++.+++.+|||+|++.|..+...||++|.+.++||+-+|..||+.. ..
T Consensus        35 smiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~-~~  113 (246)
T KOG4252|consen   35 SMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEAT-LE  113 (246)
T ss_pred             HHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHH-HH
Confidence            578999999999999999997665 7788888899999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |++.+...+..+|.++|.||+|+.++..          +...+++.+++.+.+ .++.+|++...|+..+|..|+..+.+
T Consensus       114 w~~kv~~e~~~IPtV~vqNKIDlveds~----------~~~~evE~lak~l~~-RlyRtSvked~NV~~vF~YLaeK~~q  182 (246)
T KOG4252|consen  114 WYNKVQKETERIPTVFVQNKIDLVEDSQ----------MDKGEVEGLAKKLHK-RLYRTSVKEDFNVMHVFAYLAEKLTQ  182 (246)
T ss_pred             HHHHHHHHhccCCeEEeeccchhhHhhh----------cchHHHHHHHHHhhh-hhhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999999999999999999999988775          888999999999998 89999999999999999999887654

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.94  E-value=1.9e-25  Score=157.78  Aligned_cols=147  Identities=34%  Similarity=0.602  Sum_probs=130.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.+.||++..+. ..+.+++..+.+++||++|++++...+..+++++|++|+|||++++.+++.+ ..
T Consensus        15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~~   93 (164)
T smart00175       15 SLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENL-KN   93 (164)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHH-HH
Confidence            578899999999999999986654 6777888889999999999999999999999999999999999999999998 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+..+. +++|+++|+||+|+....          .+..+.+..+++..++ .++++||++|.|++++|+++.+.+.
T Consensus        94 ~l~~~~~~~~~~~pivvv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~e~Sa~~~~~i~~l~~~i~~~~~  162 (164)
T smart00175       94 WLKELREYADPNVVIMLVGNKSDLEDQR----------QVSREEAEAFAEEHGL-PFFETSAKTNTNVEEAFEELAREIL  162 (164)
T ss_pred             HHHHHHHhCCCCCeEEEEEEchhccccc----------CCCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            999888766 689999999999986533          3677788889988887 7999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       163 ~  163 (164)
T smart00175      163 K  163 (164)
T ss_pred             h
Confidence            3

Rab GTPases are implicated in vesicle trafficking.

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

Probab=99.94  E-value=1.3e-25  Score=161.44  Aligned_cols=163  Identities=29%  Similarity=0.461  Sum_probs=135.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||++..+...+.+++..+.+++|||+|++++..++..++..++++++|||+++..+++.+ ..|
T Consensus        16 tl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~   94 (180)
T cd04137          16 SLTVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVV-KVI   94 (180)
T ss_pred             HHHHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999887788888888889999999999999999999999999999999999999999999 566


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+.+..  .+.|+++|+||+|+....          .+..++...+++.++. .++++||+++.|+.++|.++.+.+.
T Consensus        95 ~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (180)
T cd04137          95 YDKILDMLGKESVPIVLVGNKSDLHTQR----------QVSTEEGKELAESWGA-AFLESSARENENVEEAFELLIEEIE  163 (180)
T ss_pred             HHHHHHhcCCCCCCEEEEEEchhhhhcC----------ccCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            55555433  478999999999996533          2566667778888886 8999999999999999999999887


Q ss_pred             CCchhhhhccCCCCCcccC
Q 030337          161 QPPKQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~~~~~~~~~~c~~~  179 (179)
                      .......  ...+.+|.||
T Consensus       164 ~~~~~~~--~~~~~~~~~~  180 (180)
T cd04137         164 KVENPLD--PGQKKKCSIM  180 (180)
T ss_pred             HhcCCCC--CCCCCCceeC
Confidence            5544332  2245679887

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.94  E-value=5.6e-25  Score=156.48  Aligned_cols=155  Identities=58%  Similarity=0.969  Sum_probs=131.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++.++.|...+.||+.+.+...+..++..+.+++||++|++.+......+++.+|++++|||++++.+|......|
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   94 (171)
T cd00157          15 CLLISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKW   94 (171)
T ss_pred             HHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999998888888888999999999999999998888888899999999999999999999987789


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCccccccccc-CCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFI-DHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +..+....++.|+++||||+|+........ .......+..+++.+++...+...++++||++|.|++++|+++++
T Consensus        95 ~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157          95 IPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             HHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            988887767899999999999976442000 000112356778888999998778999999999999999999875

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.94  E-value=4.4e-25  Score=155.73  Aligned_cols=143  Identities=29%  Similarity=0.544  Sum_probs=126.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||.+..+. ..+.+++..+.+++||++|++.+...+..+++++|++++|||++++.+|+.+ ..
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   93 (161)
T cd01863          15 SLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNL-ET   93 (161)
T ss_pred             HHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhH-HH
Confidence            578899999999889999987665 5567788889999999999999999999999999999999999999999998 77


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      |+..+....  .+.|+++||||+|+....           ...++...+++..++ .++++||++|.|++++++++++.
T Consensus        94 ~~~~i~~~~~~~~~~~~iv~nK~D~~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863          94 WLNELETYSTNNDIVKMLVGNKIDKENRE-----------VTREEGLKFARKHNM-LFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HHHHHHHhCCCCCCcEEEEEECCcccccc-----------cCHHHHHHHHHHcCC-EEEEEecCCCCCHHHHHHHHHHh
Confidence            998888765  479999999999997432           566788889998887 89999999999999999999875

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.93  E-value=4.3e-25  Score=155.86  Aligned_cols=146  Identities=33%  Similarity=0.551  Sum_probs=129.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+.+...++++.+.+++|||+|++.+..++..++++++++++|||++++.+|..+ ..|
T Consensus        15 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   93 (164)
T cd04139          15 ALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTAT-AEF   93 (164)
T ss_pred             HHHHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999999 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....  .+.|+++|+||+|+.....          ........+++.++. +++++||++|.|++++|+++.+++.
T Consensus        94 ~~~~~~~~~~~~~piiiv~NK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139          94 REQILRVKDDDNVPLLLVGNKCDLEDKRQ----------VSSEEAANLARQWGV-PYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             HHHHHHhcCCCCCCEEEEEEccccccccc----------cCHHHHHHHHHHhCC-eEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            77777653  4799999999999975332          566777788888887 8999999999999999999998775

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.93  E-value=2.2e-26  Score=163.38  Aligned_cols=140  Identities=14%  Similarity=0.173  Sum_probs=114.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|.++.|.+++.||+|..+   ..+++..+.+++||++|+++++.+|..++++++++|+|||++++.+|..+ ..|
T Consensus        14 sli~~~~~~~~~~~~~pt~g~~~---~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~-~~~   89 (164)
T cd04162          14 SLLHSLSSERSLESVVPTTGFNS---VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLA-RQE   89 (164)
T ss_pred             HHHHHHhcCCCcccccccCCcce---EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            57889999999999999998543   33455668999999999999999999999999999999999999999988 677


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccH----HHHHHHHHHhCCCeEEEeccCC------CCcHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT----AQGEELRKLIGSPAYIECSSKT------QQNVKAVF  152 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~e~Sa~~------~~~i~~~f  152 (179)
                      +..+....+++|+++|+||.|+.....          ++.    ..+..+++..++ .++++||++      +.||+++|
T Consensus        90 l~~~~~~~~~~piilv~NK~Dl~~~~~----------~~~i~~~~~~~~~~~~~~~-~~~~~Sa~~~~s~~~~~~v~~~~  158 (164)
T cd04162          90 LHQLLQHPPDLPLVVLANKQDLPAARS----------VQEIHKELELEPIARGRRW-ILQGTSLDDDGSPSRMEAVKDLL  158 (164)
T ss_pred             HHHHHhCCCCCcEEEEEeCcCCcCCCC----------HHHHHHHhCChhhcCCCce-EEEEeeecCCCChhHHHHHHHHH
Confidence            777755446899999999999965332          221    234556666666 788888888      99999999


Q ss_pred             HHHHH
Q 030337          153 DAAIK  157 (179)
Q Consensus       153 ~~l~~  157 (179)
                      +.++.
T Consensus       159 ~~~~~  163 (164)
T cd04162         159 SQLIN  163 (164)
T ss_pred             HHHhc
Confidence            98874

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.93  E-value=1.8e-25  Score=161.11  Aligned_cols=140  Identities=13%  Similarity=0.169  Sum_probs=108.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|++++..+.|. .+.||+|..+. .+..  ..+.++|||++|+++++.+|..+++++|++|+|||+++++++..+...+
T Consensus        32 sl~~~l~~~~~~-~~~pt~g~~~~-~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l  107 (181)
T PLN00223         32 TILYKLKLGEIV-TTIPTIGFNVE-TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDEL  107 (181)
T ss_pred             HHHHHHccCCCc-cccCCcceeEE-EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHH
Confidence            477889888886 57899986553 3433  4589999999999999999999999999999999999999999884333


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCC-------eEEEeccCCCCcHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP-------AYIECSSKTQQNVKAVFDA  154 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~e~Sa~~~~~i~~~f~~  154 (179)
                      ...+.... +++|++||+||.|+...            .+.   .++.+.+++.       .++++||++|+|+.++|++
T Consensus       108 ~~~l~~~~~~~~piilv~NK~Dl~~~------------~~~---~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~  172 (181)
T PLN00223        108 HRMLNEDELRDAVLLVFANKQDLPNA------------MNA---AEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDW  172 (181)
T ss_pred             HHHhcCHhhCCCCEEEEEECCCCCCC------------CCH---HHHHHHhCccccCCCceEEEeccCCCCCCHHHHHHH
Confidence            33333322 57999999999998642            222   3333333332       3568999999999999999


Q ss_pred             HHHHHhC
Q 030337          155 AIKVVLQ  161 (179)
Q Consensus       155 l~~~i~~  161 (179)
                      |++.+..
T Consensus       173 l~~~~~~  179 (181)
T PLN00223        173 LSNNIAN  179 (181)
T ss_pred             HHHHHhh
Confidence            9988764

>cd04123 Rab21 Rab21 subfamily

Probab=99.93  E-value=7.5e-25  Score=154.22  Aligned_cols=145  Identities=30%  Similarity=0.552  Sum_probs=126.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+ ...+.+++..+.+.+||++|++.+..+++.++++++++++|||++++++++.+ ..
T Consensus        15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   93 (162)
T cd04123          15 SLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKV-KK   93 (162)
T ss_pred             HHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            47789999999988888886555 46677778889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.... .+.|+++|+||+|+....          .+..+...++++..+. .++++||+++.|++++|+++.+.+
T Consensus        94 ~~~~i~~~~~~~~piiiv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123          94 WIKELKQMRGNNISLVIVGNKIDLERQR----------VVSKSEAEEYAKSVGA-KHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHhCCCCCeEEEEEECccccccc----------CCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHh
Confidence            988888766 479999999999997543          3667777888888887 799999999999999999998875

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.93  E-value=1.6e-25  Score=159.53  Aligned_cols=139  Identities=15%  Similarity=0.172  Sum_probs=107.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|++++..+.|. .+.||+|..+. .+..  ..+.+++|||+|++++..+|+.++++++++|+|||++++.+|+++...|
T Consensus        24 sli~~l~~~~~~-~~~~t~g~~~~-~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~   99 (168)
T cd04149          24 TILYKLKLGQSV-TTIPTVGFNVE-TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQEL   99 (168)
T ss_pred             HHHHHHccCCCc-cccCCcccceE-EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHH
Confidence            477888888885 47899986553 3333  4589999999999999999999999999999999999999999984434


Q ss_pred             HHHHhhc-CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH---hC-CCeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL---IG-SPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~-~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .+.+... .+++|++||+||+|+...            ++.+++..+++.   .+ ...++++||++|.|++++|++|.+
T Consensus       100 ~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         100 HRIINDREMRDALLLVFANKQDLPDA------------MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             HHHhcCHhhcCCcEEEEEECcCCccC------------CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            4444433 257999999999998541            344555554432   11 126899999999999999999975

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.93  E-value=1.8e-24  Score=153.63  Aligned_cols=150  Identities=26%  Similarity=0.303  Sum_probs=118.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.++ ...+.....+++..+.+++|||+|++.+...+..++++++++++|||++++.+|+.+...|
T Consensus        15 sl~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~   93 (166)
T cd01893          15 SLIMSLVSEEFPENVPRV-LPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKW   93 (166)
T ss_pred             HHHHHHHhCcCCccCCCc-ccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHH
Confidence            578899999998775444 4445555566778899999999999988887788899999999999999999999985679


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ++.++...++.|+++||||+|+.+...        .....+....+++.+. ...++++||++|.|++++|+.+.+.+++
T Consensus        94 ~~~i~~~~~~~pviiv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893          94 LPLIRRLGVKVPIILVGNKSDLRDGSS--------QAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             HHHHHHhCCCCCEEEEEEchhcccccc--------hhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            888887667899999999999976432        0011233333444443 2379999999999999999999998765

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.93  E-value=1.1e-24  Score=155.36  Aligned_cols=143  Identities=13%  Similarity=0.169  Sum_probs=114.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+ +.||+|..+. .+..  ..+.+++|||+|++.+...|..++++++++++|||++++.++.++ ..|
T Consensus        14 sl~~~l~~~~~~~-~~~T~~~~~~-~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~-~~~   88 (169)
T cd04158          14 TILFKLKQDEFMQ-PIPTIGFNVE-TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEA-HSE   88 (169)
T ss_pred             HHHHHHhcCCCCC-cCCcCceeEE-EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHH-HHH
Confidence            4778899988865 8999986654 3333  458999999999999999999999999999999999999999998 667


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC-----CeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-----PAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|++||+||+|+..            .++.+++.++++..+.     ..++++||++|.||+++|++|
T Consensus        89 ~~~~~~~~~~~~~piilv~NK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l  156 (169)
T cd04158          89 LAKLLTEKELRDALLLIFANKQDVAG------------ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWL  156 (169)
T ss_pred             HHHHhcChhhCCCCEEEEEeCcCccc------------CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHH
Confidence            66665432  4689999999999953            2555666666543321     257899999999999999999


Q ss_pred             HHHHhCC
Q 030337          156 IKVVLQP  162 (179)
Q Consensus       156 ~~~i~~~  162 (179)
                      ++.+...
T Consensus       157 ~~~~~~~  163 (169)
T cd04158         157 SRQLVAA  163 (169)
T ss_pred             HHHHhhc
Confidence            9887653

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.93  E-value=1.7e-24  Score=158.19  Aligned_cols=147  Identities=23%  Similarity=0.344  Sum_probs=123.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+.+.|.+.+.||++....+.+.+++..+.+++||++|++.|..++..+++++|++|+|||++++.+|+.+ ..|
T Consensus        14 sll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~-~~~   92 (198)
T cd04147          14 ALIQRFLYDTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEV-ERL   92 (198)
T ss_pred             HHHHHHHhCCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788999999999999999876667788888889999999999999999888999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-HhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-LIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+....  .+.|+++|+||+|+....         +.+..+.+.+.+. ..+. .++++||++|.|++++|+++++.+
T Consensus        93 ~~~i~~~~~~~~~piilv~NK~Dl~~~~---------~~v~~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~~l~~~l~~~~  162 (198)
T cd04147          93 REEILEVKEDKFVPIVVVGNKADSLEEE---------RQVPAKDALSTVELDWNC-GFVETSAKDNENVLEVFKELLRQA  162 (198)
T ss_pred             HHHHHHhcCCCCCcEEEEEEcccccccc---------ccccHHHHHHHHHhhcCC-cEEEecCCCCCCHHHHHHHHHHHh
Confidence            87776654  479999999999996521         1245545554443 3455 799999999999999999999977


Q ss_pred             h
Q 030337          160 L  160 (179)
Q Consensus       160 ~  160 (179)
                      .
T Consensus       163 ~  163 (198)
T cd04147         163 N  163 (198)
T ss_pred             h
Confidence            5

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.

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

Probab=99.93  E-value=1.4e-24  Score=155.62  Aligned_cols=140  Identities=14%  Similarity=0.142  Sum_probs=106.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||+|..+. .+..  +.+.+++|||+|++++..+|..++++++++|+|||++++.+++.+ ..|
T Consensus        28 sL~~~~~~~~~~-~~~~t~~~~~~-~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~-~~~  102 (175)
T smart00177       28 TILYKLKLGESV-TTIPTIGFNVE-TVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEA-REE  102 (175)
T ss_pred             HHHHHHhcCCCC-CcCCccccceE-EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHH-HHH
Confidence            578889889985 58899986654 3333  348999999999999999999999999999999999999999998 455


Q ss_pred             HHHH-hhc-CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPEL-RHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i-~~~-~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+ ... .+++|++|||||.|+.+.            .+.++..+...     ...+ .++++||++|.|+.++|+||
T Consensus       103 l~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~e~~~~l  169 (175)
T smart00177      103 LHRMLNEDELRDAVILVFANKQDLPDA------------MKAAEITEKLGLHSIRDRNW-YIQPTCATSGDGLYEGLTWL  169 (175)
T ss_pred             HHHHhhCHhhcCCcEEEEEeCcCcccC------------CCHHHHHHHhCccccCCCcE-EEEEeeCCCCCCHHHHHHHH
Confidence            5444 332 257999999999999642            22222222111     1122 46789999999999999999


Q ss_pred             HHHHh
Q 030337          156 IKVVL  160 (179)
Q Consensus       156 ~~~i~  160 (179)
                      .+.+.
T Consensus       170 ~~~~~  174 (175)
T smart00177      170 SNNLK  174 (175)
T ss_pred             HHHhc
Confidence            88653

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).

>cd04114 Rab30 Rab30 subfamily

Probab=99.92  E-value=3.3e-24  Score=152.37  Aligned_cols=145  Identities=28%  Similarity=0.484  Sum_probs=125.2

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+ ...+.+++..+.+.+||++|++.+...+..+++.++++++|||++++.+|+.+ ..
T Consensus        22 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  100 (169)
T cd04114          22 CLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCL-PE  100 (169)
T ss_pred             HHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            46788888999999999998544 46778889889999999999999999888999999999999999999999988 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.... ..+|+++|+||+|+.....          +..+....+.+.... .++++||++|.|+.++|+++.+.+
T Consensus       101 ~~~~l~~~~~~~~~~i~v~NK~D~~~~~~----------i~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         101 WLREIEQYANNKVITILVGNKIDLAERRE----------VSQQRAEEFSDAQDM-YYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             HHHHHHHhCCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEEEeeCCCCCCHHHHHHHHHHHh
Confidence            988887765 4799999999999965442          666667777777775 899999999999999999999865

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.92  E-value=4.9e-24  Score=157.56  Aligned_cols=147  Identities=24%  Similarity=0.410  Sum_probs=126.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.|.||+|..+. ..+..+++.+.+++|||+|++++..++..++++++++++|||++++.+|..+ ..
T Consensus        24 tLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~  102 (215)
T PTZ00132         24 TFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNV-PN  102 (215)
T ss_pred             HHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            467789999999999999997665 5666788899999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.....++|++++|||+|+....           +..+. ..+++..++ .++++||++|.|++++|.++++.+..
T Consensus       103 ~~~~i~~~~~~~~i~lv~nK~Dl~~~~-----------~~~~~-~~~~~~~~~-~~~e~Sa~~~~~v~~~f~~ia~~l~~  169 (215)
T PTZ00132        103 WHRDIVRVCENIPIVLVGNKVDVKDRQ-----------VKARQ-ITFHRKKNL-QYYDISAKSNYNFEKPFLWLARRLTN  169 (215)
T ss_pred             HHHHHHHhCCCCCEEEEEECccCcccc-----------CCHHH-HHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            998888776789999999999985422           33333 456677777 89999999999999999999998876


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      .+
T Consensus       170 ~p  171 (215)
T PTZ00132        170 DP  171 (215)
T ss_pred             cc
Confidence            54

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.92  E-value=1e-24  Score=154.05  Aligned_cols=138  Identities=13%  Similarity=0.150  Sum_probs=104.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||+|..+. .+..  ..+.+++|||+|++++..+|..++++++++|+|||++++.+|+.+...|
T Consensus        15 sli~~l~~~~~~-~~~pt~g~~~~-~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~   90 (159)
T cd04150          15 TILYKLKLGEIV-TTIPTIGFNVE-TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREEL   90 (159)
T ss_pred             HHHHHHhcCCCc-ccCCCCCcceE-EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            478889899997 58999986553 3333  4588999999999999999999999999999999999999999984334


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHH-HHHHHH----HhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ-GEELRK----LIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~----~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...+.... .+.|++|++||+|+.+.            ....+ ...+..    ..+. .++++||++|.|++++|++|.
T Consensus        91 ~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sak~g~gv~~~~~~l~  157 (159)
T cd04150          91 QRMLNEDELRDAVLLVFANKQDLPNA------------MSAAEVTDKLGLHSLRNRNW-YIQATCATSGDGLYEGLDWLS  157 (159)
T ss_pred             HHHHhcHHhcCCCEEEEEECCCCCCC------------CCHHHHHHHhCccccCCCCE-EEEEeeCCCCCCHHHHHHHHh
Confidence            44443322 46999999999999542            12222 222211    1122 467999999999999999986


Q ss_pred             H
Q 030337          157 K  157 (179)
Q Consensus       157 ~  157 (179)
                      +
T Consensus       158 ~  158 (159)
T cd04150         158 N  158 (159)
T ss_pred             c
Confidence            4

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.92  E-value=1.9e-24  Score=156.01  Aligned_cols=151  Identities=17%  Similarity=0.269  Sum_probs=116.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|.+. .||+|..+. ..+.. ++..+.+++|||+|++++..+|..++++++++++|||++++.+++.+ .
T Consensus        18 sli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~-~   95 (183)
T cd04152          18 TVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEA-K   95 (183)
T ss_pred             HHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHH-H
Confidence            57889999999765 799885543 34444 44679999999999999999999999999999999999999999988 6


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-----CCeEEEeccCCCCcHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-----SPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      .|+..+....  .+.|+++|+||+|+...            ...++...+....+     ...++++||++|.|++++|+
T Consensus        96 ~~~~~i~~~~~~~~~p~iiv~NK~D~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~  163 (183)
T cd04152          96 TELHKITRFSENQGVPVLVLANKQDLPNA------------LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLE  163 (183)
T ss_pred             HHHHHHHhhhhcCCCcEEEEEECcCcccc------------CCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHH
Confidence            7777665543  47999999999998642            33334444432111     12578999999999999999


Q ss_pred             HHHHHHhCCchhhh
Q 030337          154 AAIKVVLQPPKQKK  167 (179)
Q Consensus       154 ~l~~~i~~~~~~~~  167 (179)
                      +|++.+....+..+
T Consensus       164 ~l~~~l~~~~~~~~  177 (183)
T cd04152         164 KLYEMILKRRKMLR  177 (183)
T ss_pred             HHHHHHHHHHhhhh
Confidence            99999875554443

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.92  E-value=4.3e-24  Score=154.07  Aligned_cols=141  Identities=16%  Similarity=0.197  Sum_probs=107.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.. +.||+|..+. .+..  ..+.+++|||+|+++++.+|..+++++|++|+|||++++.+++.+...|
T Consensus        32 sli~~~~~~~~~~-~~~T~~~~~~-~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l  107 (182)
T PTZ00133         32 TILYKLKLGEVVT-TIPTIGFNVE-TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREEL  107 (182)
T ss_pred             HHHHHHhcCCccc-cCCccccceE-EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            4778888899975 7899986553 3433  4489999999999999999999999999999999999999999984444


Q ss_pred             HHHHhhc-CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC-------CeEEEeccCCCCcHHHHHHH
Q 030337           83 IPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-------PAYIECSSKTQQNVKAVFDA  154 (179)
Q Consensus        83 ~~~i~~~-~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~e~Sa~~~~~i~~~f~~  154 (179)
                      .+.+... ..+.|++||+||.|+...            ...++.   ...++.       ..++++||++|.|++++|++
T Consensus       108 ~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i---~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~  172 (182)
T PTZ00133        108 ERMLSEDELRDAVLLVFANKQDLPNA------------MSTTEV---TEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDW  172 (182)
T ss_pred             HHHHhCHhhcCCCEEEEEeCCCCCCC------------CCHHHH---HHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHH
Confidence            4443332 257899999999998542            222222   222222       14668999999999999999


Q ss_pred             HHHHHhCC
Q 030337          155 AIKVVLQP  162 (179)
Q Consensus       155 l~~~i~~~  162 (179)
                      |.+.+..+
T Consensus       173 l~~~i~~~  180 (182)
T PTZ00133        173 LSANIKKS  180 (182)
T ss_pred             HHHHHHHh
Confidence            99877654

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.92  E-value=3e-24  Score=156.86  Aligned_cols=131  Identities=19%  Similarity=0.231  Sum_probs=108.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC-----CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD-----GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE   76 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~   76 (179)
                      +|+.+|+.+.|.+++.||+|..+. +.+.++     ++.+.++||||+|+++|..++..++++++++|+|||++++.||+
T Consensus        15 SLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~   94 (202)
T cd04102          15 SLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQ   94 (202)
T ss_pred             HHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHH
Confidence            578999999999999999996664 556663     57899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhc-------------------C-CCCcEEEEEeCCCcccccccccCCCCCccccHH----HHHHHHHHh
Q 030337           77 NVAKKWIPELRHY-------------------A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA----QGEELRKLI  132 (179)
Q Consensus        77 ~~~~~~~~~i~~~-------------------~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~  132 (179)
                      ++ ..|+..+...                   . +++|++|||||.|+.++..          ++.+    .+..+++..
T Consensus        95 ~l-~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~----------~~~~~~~~~~~~ia~~~  163 (202)
T cd04102          95 NL-QRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKE----------SSGNLVLTARGFVAEQG  163 (202)
T ss_pred             HH-HHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcc----------cchHHHhhHhhhHHHhc
Confidence            99 7999888652                   1 3699999999999976432          3333    345678888


Q ss_pred             CCCeEEEeccCCC
Q 030337          133 GSPAYIECSSKTQ  145 (179)
Q Consensus       133 ~~~~~~e~Sa~~~  145 (179)
                      +. +.++.++.+.
T Consensus       164 ~~-~~i~~~c~~~  175 (202)
T cd04102         164 NA-EEINLNCTNG  175 (202)
T ss_pred             CC-ceEEEecCCc
Confidence            98 6777777754

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.

>cd00876 Ras Ras family

Probab=99.91  E-value=9.1e-24  Score=148.38  Aligned_cols=145  Identities=34%  Similarity=0.589  Sum_probs=127.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||.++.+.+.+..++..+.+++||++|++.+...+..++++++++++|||+++++++.++ ..|
T Consensus        14 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   92 (160)
T cd00876          14 AITIQFVKGTFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEI-KGY   92 (160)
T ss_pred             HHHHHHHhCCCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788899999999999999977777788888889999999999999999888999999999999999999999998 667


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+....  ..+|+++|+||+|+.....          ++.+.+..+++.++. +++++||+++.|+.++|++|++.+
T Consensus        93 ~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~l~~~l~~~i  160 (160)
T cd00876          93 REQILRVKDDEDIPIVLVGNKCDLENERQ----------VSKEEGKALAKEWGC-PFIETSAKDNINIDEVFKLLVREI  160 (160)
T ss_pred             HHHHHHhcCCCCCcEEEEEECCcccccce----------ecHHHHHHHHHHcCC-cEEEeccCCCCCHHHHHHHHHhhC
Confidence            66666554  3899999999999976443          677888899988886 899999999999999999998753

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

>cd00154 Rab Rab family

Probab=99.90  E-value=6.2e-23  Score=143.42  Aligned_cols=142  Identities=36%  Similarity=0.663  Sum_probs=124.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.+.+.+.||.+..+. ..+..++..+.+.+||+||++.+...+..++++++++++|+|++++++++.+ ..
T Consensus        15 tl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~-~~   93 (159)
T cd00154          15 SLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENL-DK   93 (159)
T ss_pred             HHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            478889999999999999986665 6677778889999999999999999999999999999999999999999999 77


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |+..+.... .+.|+++++||+|+....          ....++...++...+. +++++||+++.|++++|+++.
T Consensus        94 ~~~~~~~~~~~~~p~ivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          94 WLKELKEYAPENIPIILVGNKIDLEDQR----------QVSTEEAQQFAKENGL-LFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHHhCCCCCcEEEEEEcccccccc----------cccHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHh
Confidence            998888776 679999999999996333          2667888888888877 899999999999999999986

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

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.90  E-value=3.3e-23  Score=140.80  Aligned_cols=154  Identities=22%  Similarity=0.437  Sum_probs=132.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+..|+++.|++++..|.|.++. +++.+.+..+.+.|||.+|++++..+.+...+++.+++++||++.+++++.+ ..
T Consensus        35 s~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi-~~  113 (205)
T KOG1673|consen   35 SLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNSI-KE  113 (205)
T ss_pred             eeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHHH-HH
Confidence            789999999999999999998887 8899999999999999999999999999999999999999999999999999 89


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+.+.+......--++||+|.|+.-+-.     ++-.+.-..+++.+++.++. ..+.||+....||+++|.-+...+++
T Consensus       114 WY~QAr~~NktAiPilvGTKyD~fi~lp-----~e~Q~~I~~qar~YAk~mnA-sL~F~Sts~sINv~KIFK~vlAklFn  187 (205)
T KOG1673|consen  114 WYRQARGLNKTAIPILVGTKYDLFIDLP-----PELQETISRQARKYAKVMNA-SLFFCSTSHSINVQKIFKIVLAKLFN  187 (205)
T ss_pred             HHHHHhccCCccceEEeccchHhhhcCC-----HHHHHHHHHHHHHHHHHhCC-cEEEeeccccccHHHHHHHHHHHHhC
Confidence            9999988875444457899999853221     11112334678899999998 89999999999999999999988876


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      .+
T Consensus       188 L~  189 (205)
T KOG1673|consen  188 LP  189 (205)
T ss_pred             Cc
Confidence            43

>PLN00023 GTP-binding protein; Provisional

Probab=99.90  E-value=4.1e-23  Score=158.53  Aligned_cols=129  Identities=18%  Similarity=0.261  Sum_probs=106.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC-------------CeEEEEEEEeCCCCccccccCcccccCccEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD-------------GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-------------~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d   68 (179)
                      +|+++|+.+.|.+.+.||+|..+. +.+.++             ++.+.++||||+|+++|+.++..|+++++++|+|||
T Consensus        36 SLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyD  115 (334)
T PLN00023         36 SLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHD  115 (334)
T ss_pred             HHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEe
Confidence            578999999999999999997654 666664             257899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcC-------------CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCC
Q 030337           69 LISKASYENVAKKWIPELRHYA-------------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP  135 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~-------------~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (179)
                      ++++.+|+++ ..|+..+....             .++|++|||||+|+..+..    ......+..++++++|+..++.
T Consensus       116 ITdr~SFenL-~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~----~r~~s~~~~e~a~~~A~~~g~l  190 (334)
T PLN00023        116 LSQRRTKTSL-QKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEG----TRGSSGNLVDAARQWVEKQGLL  190 (334)
T ss_pred             CCCHHHHHHH-HHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccc----ccccccccHHHHHHHHHHcCCC
Confidence            9999999999 89999998652             2589999999999965320    0000113678999999998874


Q ss_pred             e
Q 030337          136 A  136 (179)
Q Consensus       136 ~  136 (179)
                      +
T Consensus       191 ~  191 (334)
T PLN00023        191 P  191 (334)
T ss_pred             c
Confidence            3

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.90  E-value=1.5e-23  Score=149.16  Aligned_cols=141  Identities=16%  Similarity=0.168  Sum_probs=106.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+ |...+.||+|.. ...+..+  .+.+++||++|++.++.+|..++++++++|+|||++++.+++.+ ..|
T Consensus        14 sl~~~l~~~-~~~~~~~t~g~~-~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~-~~~   88 (167)
T cd04161          14 TLVSALQGE-IPKKVAPTVGFT-PTKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEV-KEI   88 (167)
T ss_pred             HHHHHHhCC-CCccccCcccce-EEEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHH-HHH
Confidence            466777755 888999999854 3444444  48899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHH---HHHHHHHhCC-CeEEEeccCCC------CcHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ---GEELRKLIGS-PAYIECSSKTQ------QNVKA  150 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~~~e~Sa~~~------~~i~~  150 (179)
                      +..+....  .+.|++||+||.|+.....         ......   ...+++..+. ..+++|||++|      .|+.+
T Consensus        89 l~~l~~~~~~~~~piliv~NK~Dl~~~~~---------~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~  159 (167)
T cd04161          89 LRELLQHPRVSGKPILVLANKQDKKNALL---------GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVE  159 (167)
T ss_pred             HHHHHcCccccCCcEEEEEeCCCCcCCCC---------HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHH
Confidence            77765543  4799999999999965331         011111   1233333333 25677999998      89999


Q ss_pred             HHHHHHH
Q 030337          151 VFDAAIK  157 (179)
Q Consensus       151 ~f~~l~~  157 (179)
                      .|+||+.
T Consensus       160 ~~~wl~~  166 (167)
T cd04161         160 GLRWLLA  166 (167)
T ss_pred             HHHHHhc
Confidence            9999974

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.89  E-value=1e-22  Score=145.52  Aligned_cols=137  Identities=18%  Similarity=0.229  Sum_probs=105.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+ +.+.+.||+|.. ...+.+++  +.+++|||+|++.++.++..++++++++++|||++++.+|+.+ ..|
T Consensus        29 sL~~~l~~~-~~~~~~~t~g~~-~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  103 (173)
T cd04154          29 TILKKLLGE-DIDTISPTLGFQ-IKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDC-KRE  103 (173)
T ss_pred             HHHHHHccC-CCCCcCCccccc-eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHH-HHH
Confidence            466777766 446788998833 34455554  7899999999999999999999999999999999999999988 566


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-----hCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-----IGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+... . .+.|+++|+||+|+.+.            ...+++..+.+.     .++ +++++||++|.|++++|+++
T Consensus       104 ~~~~~~~~~~~~~p~iiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l  170 (173)
T cd04154         104 LKELLQEERLAGATLLILANKQDLPGA------------LSEEEIREALELDKISSHHW-RIQPCSAVTGEGLLQGIDWL  170 (173)
T ss_pred             HHHHHhChhhcCCCEEEEEECcccccC------------CCHHHHHHHhCccccCCCce-EEEeccCCCCcCHHHHHHHH
Confidence            6555432 2 58999999999999642            233444444432     333 79999999999999999998


Q ss_pred             HH
Q 030337          156 IK  157 (179)
Q Consensus       156 ~~  157 (179)
                      ++
T Consensus       171 ~~  172 (173)
T cd04154         171 VD  172 (173)
T ss_pred             hc
Confidence            64

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.89  E-value=4.5e-23  Score=145.39  Aligned_cols=139  Identities=19%  Similarity=0.169  Sum_probs=104.2

Q ss_pred             eeehhhhhCC-CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSL-GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+. +.+.+.||+|..+. .+.  ...+.+++|||||++++..+|..++++++++|+|+|++++.++..+ ..
T Consensus        14 sl~~~l~~~~~~~~~~~~t~g~~~~-~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~-~~   89 (162)
T cd04157          14 TIINQLKPENAQSQIIVPTVGFNVE-SFE--KGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVV-KD   89 (162)
T ss_pred             HHHHHHcccCCCcceecCccccceE-EEE--ECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHH-HH
Confidence            4678888876 47789999984432 232  3458899999999999999999999999999999999999999887 56


Q ss_pred             HHHHHhhc---C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH---HHHhCC-CeEEEeccCCCCcHHHHHH
Q 030337           82 WIPELRHY---A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL---RKLIGS-PAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        82 ~~~~i~~~---~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~~e~Sa~~~~~i~~~f~  153 (179)
                      |+..+.+.   . .++|+++|+||+|+....            ..++....   ....+. ..++++||++|.|++++|+
T Consensus        90 ~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~------------~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~  157 (162)
T cd04157          90 ELELLLNHPDIKHRRVPILFFANKMDLPDAL------------TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQ  157 (162)
T ss_pred             HHHHHHcCcccccCCCCEEEEEeCccccCCC------------CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHH
Confidence            66665432   1 479999999999996532            11222211   111111 2589999999999999999


Q ss_pred             HHHH
Q 030337          154 AAIK  157 (179)
Q Consensus       154 ~l~~  157 (179)
                      +|.+
T Consensus       158 ~l~~  161 (162)
T cd04157         158 WLQA  161 (162)
T ss_pred             HHhc
Confidence            9875

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.88  E-value=5e-22  Score=142.24  Aligned_cols=138  Identities=19%  Similarity=0.222  Sum_probs=104.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+ +.||+|..+. .+.++  .+.+.+||++|++.+...|..++++++++++|+|+++++++......|
T Consensus        30 sl~~~l~~~~~~~-~~~t~~~~~~-~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l  105 (174)
T cd04153          30 TILYQFLLGEVVH-TSPTIGSNVE-EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEEL  105 (174)
T ss_pred             HHHHHHccCCCCC-cCCccccceE-EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHH
Confidence            4778888999875 6899986653 34344  488999999999999999999999999999999999999998884334


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHH-HHHH----HHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQG-EELR----KLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~----~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...++... .+.|+++++||+|+...            .+.++. ..+.    +..++ .++++||++|.|++++|++|.
T Consensus       106 ~~~~~~~~~~~~p~viv~NK~Dl~~~------------~~~~~i~~~l~~~~~~~~~~-~~~~~SA~~g~gi~e~~~~l~  172 (174)
T cd04153         106 YKMLAHEDLRKAVLLVLANKQDLKGA------------MTPAEISESLGLTSIRDHTW-HIQGCCALTGEGLPEGLDWIA  172 (174)
T ss_pred             HHHHhchhhcCCCEEEEEECCCCCCC------------CCHHHHHHHhCcccccCCce-EEEecccCCCCCHHHHHHHHh
Confidence            43433322 47999999999998642            222222 2221    22333 689999999999999999987


Q ss_pred             H
Q 030337          157 K  157 (179)
Q Consensus       157 ~  157 (179)
                      +
T Consensus       173 ~  173 (174)
T cd04153         173 S  173 (174)
T ss_pred             c
Confidence            5

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.88  E-value=4.6e-22  Score=140.11  Aligned_cols=138  Identities=16%  Similarity=0.178  Sum_probs=102.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||+|..+. .+  ++..+.+++|||+|++.+..+|..++++++++++|+|++++.++......|
T Consensus        14 sl~~~l~~~~~~-~~~~t~~~~~~-~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~   89 (158)
T cd04151          14 TILYRLQLGEVV-TTIPTIGFNVE-TV--TYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEEL   89 (158)
T ss_pred             HHHHHHccCCCc-CcCCccCcCeE-EE--EECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHH
Confidence            467888888886 46789886543 23  334588999999999999999999999999999999999999988763444


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHH-HHHH----HHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQG-EELR----KLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~----~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...++... .+.|+++|+||+|+....            ...+. ..+.    +..+. +++++||++|.|++++|++|+
T Consensus        90 ~~~~~~~~~~~~piiiv~nK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~  156 (158)
T cd04151          90 HAMLEEEELKGAVLLVFANKQDMPGAL------------SEAEISEKLGLSELKDRTW-SIFKTSAIKGEGLDEGMDWLV  156 (158)
T ss_pred             HHHHhchhhcCCcEEEEEeCCCCCCCC------------CHHHHHHHhCccccCCCcE-EEEEeeccCCCCHHHHHHHHh
Confidence            44444322 479999999999986422            11121 1111    11223 699999999999999999997


Q ss_pred             H
Q 030337          157 K  157 (179)
Q Consensus       157 ~  157 (179)
                      +
T Consensus       157 ~  157 (158)
T cd04151         157 N  157 (158)
T ss_pred             c
Confidence            5

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

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

Probab=99.87  E-value=7.5e-21  Score=133.18  Aligned_cols=143  Identities=15%  Similarity=0.152  Sum_probs=113.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      .|++++..+.+... .||+|-+.+ ++.+.+  +.+++||.+||++++++|..|+++.+++|||+|.+|++.+..+.+++
T Consensus        32 TILykLk~~E~vtt-vPTiGfnVE-~v~ykn--~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL  107 (181)
T KOG0070|consen   32 TILYKLKLGEIVTT-VPTIGFNVE-TVEYKN--ISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEEL  107 (181)
T ss_pred             eeeEeeccCCcccC-CCcccccee-EEEEcc--eEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHH
Confidence            46788888888777 999996555 344454  89999999999999999999999999999999999999999997777


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH---HhCC-CeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK---LIGS-PAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ...+.... ...|+++.+||.|++..-            +..+......   ..+. ..+..|||.+|.|+.+.++|+..
T Consensus       108 ~~~l~~~~l~~~~llv~aNKqD~~~al------------s~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~  175 (181)
T KOG0070|consen  108 HRMLAEPELRNAPLLVFANKQDLPGAL------------SAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSN  175 (181)
T ss_pred             HHHHcCcccCCceEEEEechhhccccC------------CHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHH
Confidence            77776655 689999999999997643            3222222222   2221 35677999999999999999998


Q ss_pred             HHhC
Q 030337          158 VVLQ  161 (179)
Q Consensus       158 ~i~~  161 (179)
                      .+..
T Consensus       176 ~~~~  179 (181)
T KOG0070|consen  176 NLKK  179 (181)
T ss_pred             HHhc
Confidence            8754

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.87  E-value=2.1e-21  Score=136.70  Aligned_cols=138  Identities=18%  Similarity=0.220  Sum_probs=104.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.. +.||+|..+. .+.. +..+.+.+|||+|++.+...|..++++++++|+|+|++++.++..+ ..|
T Consensus        14 sl~~~~~~~~~~~-~~~t~~~~~~-~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~-~~~   89 (160)
T cd04156          14 TLLYKLKHAELVT-TIPTVGFNVE-MLQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDES-QKE   89 (160)
T ss_pred             HHHHHHhcCCccc-ccCccCcceE-EEEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHH-HHH
Confidence            5788999999875 4788885443 3333 3458999999999999998899999999999999999999999988 555


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH------HHHhCCCeEEEeccCCCCcHHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL------RKLIGSPAYIECSSKTQQNVKAVFDA  154 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~e~Sa~~~~~i~~~f~~  154 (179)
                      +..+.+. . .+.|+++|+||+|+...            ...++....      +...+. +++++||++|.|++++|++
T Consensus        90 ~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~~~~~  156 (160)
T cd04156          90 LKHILKNEHIKGVPVVLLANKQDLPGA------------LTAEEITRRFKLKKYCSDRDW-YVQPCSAVTGEGLAEAFRK  156 (160)
T ss_pred             HHHHHhchhhcCCCEEEEEECcccccC------------cCHHHHHHHcCCcccCCCCcE-EEEecccccCCChHHHHHH
Confidence            5555332 2 57999999999999642            122222211      112233 6899999999999999999


Q ss_pred             HHH
Q 030337          155 AIK  157 (179)
Q Consensus       155 l~~  157 (179)
                      |.+
T Consensus       157 i~~  159 (160)
T cd04156         157 LAS  159 (160)
T ss_pred             Hhc
Confidence            864

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

>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=99.87  E-value=3.9e-21  Score=137.81  Aligned_cols=140  Identities=21%  Similarity=0.306  Sum_probs=108.3

Q ss_pred             eehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI   83 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~   83 (179)
                      |++++..+.+. ...||+|.+. ..+.+++  +.+.+||.+|+..+++.|+.|+.+++++|||+|.+|+..+......+.
T Consensus        30 ll~~l~~~~~~-~~~pT~g~~~-~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~  105 (175)
T PF00025_consen   30 LLNRLKNGEIS-ETIPTIGFNI-EEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELK  105 (175)
T ss_dssp             HHHHHHSSSEE-EEEEESSEEE-EEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHH
T ss_pred             HHHHhhhcccc-ccCccccccc-ceeeeCc--EEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchh
Confidence            56666666554 4889988554 3455666  789999999999999999999999999999999999999998865655


Q ss_pred             HHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-----CCeEEEeccCCCCcHHHHHHHHHH
Q 030337           84 PELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-----SPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        84 ~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ..+.... .+.|+++++||.|+.+.            .+.++.........     -..++.|||.+|.|+.+.|+||.+
T Consensus       106 ~ll~~~~~~~~piLIl~NK~D~~~~------------~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~  173 (175)
T PF00025_consen  106 ELLNDPELKDIPILILANKQDLPDA------------MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIE  173 (175)
T ss_dssp             HHHTSGGGTTSEEEEEEESTTSTTS------------STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHH
T ss_pred             hhcchhhcccceEEEEeccccccCc------------chhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHh
Confidence            5555433 58999999999999753            34444444332221     125788999999999999999998


Q ss_pred             HH
Q 030337          158 VV  159 (179)
Q Consensus       158 ~i  159 (179)
                      ++
T Consensus       174 ~~  175 (175)
T PF00025_consen  174 QI  175 (175)
T ss_dssp             HH
T ss_pred             cC
Confidence            75

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 ....

>cd00879 Sar1 Sar1 subfamily

Probab=99.86  E-value=3e-21  Score=139.85  Aligned_cols=139  Identities=16%  Similarity=0.239  Sum_probs=108.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.+. .+.||.+... ..+.+++  +.+.+||+||++.+...|..++++++++++|+|++++.+++.. ..|
T Consensus        34 tLi~~l~~~~~~-~~~~T~~~~~-~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~-~~~  108 (190)
T cd00879          34 TLLHMLKDDRLA-QHVPTLHPTS-EELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQES-KEE  108 (190)
T ss_pred             HHHHHHhcCCCc-ccCCccCcce-EEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHH-HHH
Confidence            467888888874 6888887543 4455665  7789999999999988889999999999999999999999887 455


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh---------------CCCeEEEeccCCC
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI---------------GSPAYIECSSKTQ  145 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~e~Sa~~~  145 (179)
                      +..+....  .+.|+++++||+|+..            .+..++...+++..               ....+++|||++|
T Consensus       109 ~~~i~~~~~~~~~pvivv~NK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  176 (190)
T cd00879         109 LDSLLSDEELANVPFLILGNKIDLPG------------AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKR  176 (190)
T ss_pred             HHHHHcCccccCCCEEEEEeCCCCCC------------CcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCC
Confidence            55554332  4799999999999864            24556666655431               1126899999999


Q ss_pred             CcHHHHHHHHHHH
Q 030337          146 QNVKAVFDAAIKV  158 (179)
Q Consensus       146 ~~i~~~f~~l~~~  158 (179)
                      .|++++|++|.+.
T Consensus       177 ~gv~e~~~~l~~~  189 (190)
T cd00879         177 QGYGEAFRWLSQY  189 (190)
T ss_pred             CChHHHHHHHHhh
Confidence            9999999999875

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.86  E-value=7.8e-21  Score=134.75  Aligned_cols=130  Identities=21%  Similarity=0.314  Sum_probs=99.8

Q ss_pred             CCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-
Q 030337           12 LGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-   90 (179)
Q Consensus        12 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-   90 (179)
                      .+...+.||++..+. .+.+++  ..+++|||||++.+..++..++++++++++|+|++++.++... ..|+..+.+.. 
T Consensus        29 ~~~~~~~~t~~~~~~-~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~-~~~~~~~~~~~~  104 (167)
T cd04160          29 LPPSKITPTVGLNIG-TIEVGN--ARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEES-KSALEKVLRNEA  104 (167)
T ss_pred             CcccccCCccccceE-EEEECC--EEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHH-HHHHHHHHhChh
Confidence            345667888886653 344554  7899999999999999999999999999999999999999988 56666554432 


Q ss_pred             -CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh------CCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           91 -PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI------GSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        91 -~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                       .+.|+++++||+|+...            ...++...+.+..      ...+++++||++|.|+++++++|.+
T Consensus       105 ~~~~p~ilv~NK~D~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         105 LEGVPLLILANKQDLPDA------------LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             hcCCCEEEEEEccccccC------------CCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence             47999999999998652            3333444443321      1137999999999999999999875

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.

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

Probab=99.85  E-value=4.8e-21  Score=129.13  Aligned_cols=139  Identities=20%  Similarity=0.303  Sum_probs=112.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      .|+..-.+|.|.++..||.|-+..+   ++...+.+.+||.|||.+|+++|+.|+++++++++|+|+.||+.......++
T Consensus        35 t~Vn~ia~g~~~edmiptvGfnmrk---~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL  111 (186)
T KOG0075|consen   35 TLVNVIARGQYLEDMIPTVGFNMRK---VTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSEL  111 (186)
T ss_pred             eEEEEEeeccchhhhcccccceeEE---eccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHH
Confidence            3555666789999999999965553   3444589999999999999999999999999999999999999888776777


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC-------CeEEEeccCCCCcHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-------PAYIECSSKTQQNVKAVFDA  154 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~e~Sa~~~~~i~~~f~~  154 (179)
                      ...+.+.. ..+|++++|||.|++..            .+..+.   ...+|.       ..++.+|+++..|++.+.+|
T Consensus       112 ~~LL~k~~l~gip~LVLGnK~d~~~A------------L~~~~l---i~rmgL~sitdREvcC~siScke~~Nid~~~~W  176 (186)
T KOG0075|consen  112 HDLLDKPSLTGIPLLVLGNKIDLPGA------------LSKIAL---IERMGLSSITDREVCCFSISCKEKVNIDITLDW  176 (186)
T ss_pred             HHHhcchhhcCCcEEEecccccCccc------------ccHHHH---HHHhCccccccceEEEEEEEEcCCccHHHHHHH
Confidence            77777765 68999999999999763            333222   233333       25788999999999999999


Q ss_pred             HHHHH
Q 030337          155 AIKVV  159 (179)
Q Consensus       155 l~~~i  159 (179)
                      |+++-
T Consensus       177 li~hs  181 (186)
T KOG0075|consen  177 LIEHS  181 (186)
T ss_pred             HHHHh
Confidence            99864

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

Probab=99.85  E-value=1.4e-20  Score=136.01  Aligned_cols=139  Identities=13%  Similarity=0.165  Sum_probs=104.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||.+... ..+.+++  +.+.+||++|++.++..|..++++++++++|+|++++.++... ..+
T Consensus        32 sli~~l~~~~~~-~~~~t~~~~~-~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~-~~~  106 (184)
T smart00178       32 TLLHMLKNDRLA-QHQPTQHPTS-EELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAES-KRE  106 (184)
T ss_pred             HHHHHHhcCCCc-ccCCccccce-EEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHH-HHH
Confidence            467788888775 4567776433 2344454  7899999999999999999999999999999999999999888 455


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-----------hCCCeEEEeccCCCCcHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-----------IGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~e~Sa~~~~~i~  149 (179)
                      +..+.+. . .+.|+++|+||+|+...            ++.++..+....           .+...+++|||++|.|++
T Consensus       107 l~~l~~~~~~~~~piliv~NK~Dl~~~------------~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~  174 (184)
T smart00178      107 LDALLSDEELATVPFLILGNKIDAPYA------------ASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYG  174 (184)
T ss_pred             HHHHHcChhhcCCCEEEEEeCccccCC------------CCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChH
Confidence            5444332 2 57999999999998642            344444433211           123368999999999999


Q ss_pred             HHHHHHHHH
Q 030337          150 AVFDAAIKV  158 (179)
Q Consensus       150 ~~f~~l~~~  158 (179)
                      ++++||..+
T Consensus       175 ~~~~wl~~~  183 (184)
T smart00178      175 EGFKWLSQY  183 (184)
T ss_pred             HHHHHHHhh
Confidence            999999865

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

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

Probab=99.85  E-value=1.1e-20  Score=132.88  Aligned_cols=137  Identities=20%  Similarity=0.228  Sum_probs=104.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.+ ..+.||++..+. .+.++  .+.+.+||+||++.+...+..++++++++++|||++++.++..+ ..|
T Consensus        14 sli~~~~~~~~-~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~-~~~   88 (158)
T cd00878          14 TILYKLKLGEV-VTTIPTIGFNVE-TVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEA-KEE   88 (158)
T ss_pred             HHHHHHhcCCC-CCCCCCcCcceE-EEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            46778888874 567888875443 34444  47899999999999999999999999999999999999999988 566


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|+++++||+|+....            ..++......     ... .+++++||++|.|++++|++|
T Consensus        89 ~~~~~~~~~~~~~piiiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gv~~~~~~l  155 (158)
T cd00878          89 LHKLLNEEELKGVPLLIFANKQDLPGAL------------SVSELIEKLGLEKILGRR-WHIQPCSAVTGDGLDEGLDWL  155 (158)
T ss_pred             HHHHHhCcccCCCcEEEEeeccCCcccc------------CHHHHHHhhChhhccCCc-EEEEEeeCCCCCCHHHHHHHH
Confidence            65554433  589999999999996532            2222222222     123 379999999999999999998


Q ss_pred             HH
Q 030337          156 IK  157 (179)
Q Consensus       156 ~~  157 (179)
                      ..
T Consensus       156 ~~  157 (158)
T cd00878         156 LQ  157 (158)
T ss_pred             hh
Confidence            75

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

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

Probab=99.84  E-value=9.8e-20  Score=124.89  Aligned_cols=136  Identities=18%  Similarity=0.234  Sum_probs=106.6

Q ss_pred             CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-C
Q 030337           13 GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-P   91 (179)
Q Consensus        13 f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~   91 (179)
                      -.+.-.||.|-. .+++.+.+  ++++|||++||..+++.|+.||...||+|+|+|.+|+..+++....+-..+.... .
T Consensus        40 ~~~~i~pt~gf~-Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerla  116 (185)
T KOG0073|consen   40 DTDTISPTLGFQ-IKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLA  116 (185)
T ss_pred             CccccCCcccee-eEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhc
Confidence            366678888732 35565666  8999999999999999999999999999999999999999998666655555433 4


Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccH---HHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITT---AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ..|++|++||.|+...-+         ..+.   ....++++...+ ..+.||+.+|.++.+.++|++..+..
T Consensus       117 G~~~Lvlank~dl~~~l~---------~~~i~~~~~L~~l~ks~~~-~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  117 GAPLLVLANKQDLPGALS---------LEEISKALDLEELAKSHHW-RLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             CCceEEEEecCcCccccC---------HHHHHHhhCHHHhccccCc-eEEEEeccccccHHHHHHHHHHHHHH
Confidence            699999999999974221         1111   223445566666 89999999999999999999998875

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.83  E-value=6.4e-20  Score=128.21  Aligned_cols=138  Identities=22%  Similarity=0.299  Sum_probs=106.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|..++.||++..+.+ +..++  +.+.+||++|++.+...+..++++++++++|+|++++.++... ..|
T Consensus        14 sl~~~l~~~~~~~~~~~t~~~~~~~-~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~-~~~   89 (159)
T cd04159          14 TLVNVIAGGQFSEDTIPTVGFNMRK-VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAA-KNE   89 (159)
T ss_pred             HHHHHHccCCCCcCccCCCCcceEE-EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            5788999999999999999866653 33444  8899999999999999999999999999999999999999887 445


Q ss_pred             HHHHhh-cC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRH-YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~-~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+.. .. .+.|+++|+||+|+.+..            ...+.....     ...+ .+++++|+++|.|+.++|+++
T Consensus        90 ~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~l  156 (159)
T cd04159          90 LHDLLEKPSLEGIPLLVLGNKNDLPGAL------------SVDELIEQMNLKSITDRE-VSCYSISCKEKTNIDIVLDWL  156 (159)
T ss_pred             HHHHHcChhhcCCCEEEEEeCccccCCc------------CHHHHHHHhCcccccCCc-eEEEEEEeccCCChHHHHHHH
Confidence            444433 22 478999999999986532            111111111     1122 378999999999999999998


Q ss_pred             HH
Q 030337          156 IK  157 (179)
Q Consensus       156 ~~  157 (179)
                      .+
T Consensus       157 ~~  158 (159)
T cd04159         157 IK  158 (159)
T ss_pred             hh
Confidence            75

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

>cd01890 LepA LepA subfamily

Probab=99.83  E-value=7.7e-20  Score=131.08  Aligned_cols=112  Identities=21%  Similarity=0.289  Sum_probs=89.3

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      +++.+.+++|||||++.|...+..+++++|++|+|||+++..+++.. ..|.....   .++|+++|+||+|+....   
T Consensus        63 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~---  135 (179)
T cd01890          63 DGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTL-ANFYLALE---NNLEIIPVINKIDLPSAD---  135 (179)
T ss_pred             CCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhH-HHHHHHHH---cCCCEEEEEECCCCCcCC---
Confidence            66789999999999999999988999999999999999998777766 45543322   368999999999985421   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHH
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                               ......++++.+++.  .++++||++|.|++++|+++.+.+
T Consensus       136 ---------~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         136 ---------PERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             ---------HHHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence                     222344566666652  489999999999999999998865

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.

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

Probab=99.83  E-value=1.2e-19  Score=134.25  Aligned_cols=163  Identities=29%  Similarity=0.426  Sum_probs=123.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+.+.||++..+. ......+..+.+.+|||+|+++|+.+++.|+.++++++++||.++..++.++...
T Consensus        20 tl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~   99 (219)
T COG1100          20 TLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEE   99 (219)
T ss_pred             HHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHH
Confidence            478999999999999999997776 4444455589999999999999999999999999999999999997777666699


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCC--CCCccccHHHHHHHHHHh--CCCeEEEeccC--CCCcHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDH--PGAVPITTAQGEELRKLI--GSPAYIECSSK--TQQNVKAVFDA  154 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~--~~~~i~~~f~~  154 (179)
                      |...+.... .+.|+++|+||+|+..........  ...+....+.....+...  ....++++|++  .+.++.++|..
T Consensus       100 ~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~  179 (219)
T COG1100         100 WLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKE  179 (219)
T ss_pred             HHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHH
Confidence            999998887 479999999999998754210000  000112222223322222  22348999999  99999999999


Q ss_pred             HHHHHhCCchh
Q 030337          155 AIKVVLQPPKQ  165 (179)
Q Consensus       155 l~~~i~~~~~~  165 (179)
                      +++.+.+....
T Consensus       180 ~~~~~~~~~~~  190 (219)
T COG1100         180 LLRKLLEEIEK  190 (219)
T ss_pred             HHHHHHHhhhh
Confidence            99988765444

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

Probab=99.82  E-value=3.1e-20  Score=130.21  Aligned_cols=146  Identities=24%  Similarity=0.353  Sum_probs=124.8

Q ss_pred             eehhhhhCCCCCcccCceeeceeeEEEECCe-EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFSANVVVDGS-TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      ++.|...|.|+..|.||+|......+...+. .+++..|||+|+|.+..+...|+=++.+.|++||++..-++.++ ..|
T Consensus        26 ~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~-~rw  104 (216)
T KOG0096|consen   26 FVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNV-PRW  104 (216)
T ss_pred             hhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhcc-hHH
Confidence            3567889999999999999888777776554 49999999999999999999999999999999999999999999 899


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ...+.+.+.++||+++|||.|.....            .......+-+..++ .++++||+++.|.+..|.|+.+.+...
T Consensus       105 hrd~~rv~~NiPiv~cGNKvDi~~r~------------~k~k~v~~~rkknl-~y~~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  105 HRDLVRVRENIPIVLCGNKVDIKARK------------VKAKPVSFHRKKNL-QYYEISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             HHHHHHHhcCCCeeeeccceeccccc------------cccccceeeecccc-eeEEeecccccccccchHHHhhhhcCC
Confidence            99999999889999999999986522            12223344555666 899999999999999999999988754


Q ss_pred             c
Q 030337          163 P  163 (179)
Q Consensus       163 ~  163 (179)
                      +
T Consensus       172 p  172 (216)
T KOG0096|consen  172 P  172 (216)
T ss_pred             C
Confidence            3

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

Probab=99.81  E-value=8.2e-22  Score=137.76  Aligned_cols=151  Identities=24%  Similarity=0.339  Sum_probs=131.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCe-EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGS-TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +++.||++..|+..|..|||..+. +.+.++.+ .+++++||++||++|..+..-|++.+++.++|||+++.-+|+.. .
T Consensus        40 s~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~-s  118 (229)
T KOG4423|consen   40 SSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPV-S  118 (229)
T ss_pred             hHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHH-H
Confidence            578899999999999999997775 88888764 57999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC--C---CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           81 KWIPELRHYA--P---GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~--~---~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .|...+....  +   ..|+|+++||+|..+...         .....+..+++++.|...+.|+|+|.+.|+.|+-..+
T Consensus       119 kwkqdldsk~qLpng~Pv~~vllankCd~e~~a~---------~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~l  189 (229)
T KOG4423|consen  119 KWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAK---------NEATRQFDNFKKENGFEGWTETSAKENKNIPEAQREL  189 (229)
T ss_pred             HHHHhccCcccCCCCCcchheeccchhccChHhh---------hhhHHHHHHHHhccCccceeeeccccccChhHHHHHH
Confidence            8988887544  2   588999999999865432         1234677889999999999999999999999999999


Q ss_pred             HHHHhCCc
Q 030337          156 IKVVLQPP  163 (179)
Q Consensus       156 ~~~i~~~~  163 (179)
                      +..++-+.
T Consensus       190 Ve~~lvnd  197 (229)
T KOG4423|consen  190 VEKILVND  197 (229)
T ss_pred             HHHHHhhc
Confidence            99887544

>cd04155 Arl3 Arl3 subfamily

Probab=99.78  E-value=2.2e-18  Score=122.89  Aligned_cols=135  Identities=23%  Similarity=0.288  Sum_probs=99.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++....+. .+.||.|..+ ..+..++  ..+.+||++|+..+...+..++++++++++|+|++++.++... ..|
T Consensus        29 tLl~~l~~~~~~-~~~~t~g~~~-~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~-~~~  103 (173)
T cd04155          29 TILKQLASEDIS-HITPTQGFNI-KTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEA-GAE  103 (173)
T ss_pred             HHHHHHhcCCCc-ccCCCCCcce-EEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHH-HHH
Confidence            356666666553 4678887433 3444555  6789999999998888888899999999999999999999887 444


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCC-------eEEEeccCCCCcHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP-------AYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~e~Sa~~~~~i~~~f~  153 (179)
                      +..+.+. . .++|+++++||+|+....            .   ...+.+.++..       .++++||++|.|++++|+
T Consensus       104 ~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~---~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  168 (173)
T cd04155         104 LVELLEEEKLAGVPVLVFANKQDLATAA------------P---AEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMN  168 (173)
T ss_pred             HHHHHhChhhcCCCEEEEEECCCCccCC------------C---HHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHH
Confidence            4443332 2 479999999999985422            1   22233333331       468999999999999999


Q ss_pred             HHHH
Q 030337          154 AAIK  157 (179)
Q Consensus       154 ~l~~  157 (179)
                      ||++
T Consensus       169 ~l~~  172 (173)
T cd04155         169 WVCK  172 (173)
T ss_pred             HHhc
Confidence            9976

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.

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

Probab=99.78  E-value=4.2e-18  Score=120.80  Aligned_cols=140  Identities=20%  Similarity=0.176  Sum_probs=93.1

Q ss_pred             eeehhhhhCCCCCc-ccC-ceeeceeeEEEECCeEEEEEEEeCCCCccccccCcc----------cccCccEEEEEEeCC
Q 030337            3 FIYIICNYSLGKQD-YVP-TVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPL----------SYRGADVFILAFSLI   70 (179)
Q Consensus         3 ~l~~~~~~~~f~~~-~~p-t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------~~~~~~~~i~v~d~~   70 (179)
                      +|+.++..+.+... +.. |.+... ...  ..+.+.++||||||+.... .+..          ....++++++|+|++
T Consensus        15 sli~~l~~~~~~~~~~~~~t~~~~~-~~~--~~~~~~~~i~Dt~G~~~~~-~~~~~~~~~~~~~~~~~~~d~~l~v~d~~   90 (168)
T cd01897          15 SLVNKLTRAKPEVAPYPFTTKSLFV-GHF--DYKYLRWQVIDTPGLLDRP-LEERNTIEMQAITALAHLRAAVLFLFDPS   90 (168)
T ss_pred             HHHHHHhcCCCccCCCCCcccceeE-EEE--ccCceEEEEEECCCcCCcc-ccCCchHHHHHHHHHHhccCcEEEEEeCC
Confidence            56788888877432 211 222111 111  2234789999999985321 1111          112368999999999


Q ss_pred             ChhhH--HHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcH
Q 030337           71 SKASY--ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNV  148 (179)
Q Consensus        71 ~~~s~--~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i  148 (179)
                      ++.++  +.. ..|+..+.....+.|+++|+||+|+.....          +..  ..++.+..+. .++++||++|.|+
T Consensus        91 ~~~~~~~~~~-~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~----------~~~--~~~~~~~~~~-~~~~~Sa~~~~gi  156 (168)
T cd01897          91 ETCGYSLEEQ-LSLFEEIKPLFKNKPVIVVLNKIDLLTFED----------LSE--IEEEEELEGE-EVLKISTLTEEGV  156 (168)
T ss_pred             cccccchHHH-HHHHHHHHhhcCcCCeEEEEEccccCchhh----------HHH--HHHhhhhccC-ceEEEEecccCCH
Confidence            88754  544 567777776556799999999999965331          222  4455555554 7999999999999


Q ss_pred             HHHHHHHHHHHh
Q 030337          149 KAVFDAAIKVVL  160 (179)
Q Consensus       149 ~~~f~~l~~~i~  160 (179)
                      +++|+++.+.++
T Consensus       157 ~~l~~~l~~~~~  168 (168)
T cd01897         157 DEVKNKACELLL  168 (168)
T ss_pred             HHHHHHHHHHhC
Confidence            999999998763

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.77  E-value=9.3e-19  Score=121.04  Aligned_cols=122  Identities=24%  Similarity=0.209  Sum_probs=90.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCC-----ccccccCcccccCccEEEEEEeCCChhhHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQ-----EDYNRLRPLSYRGADVFILAFSLISKASYEN   77 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~-----~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   77 (179)
                      +|+.++..+.+  .+.||++..+.      +     .+|||+|+     +.+..+.. .++++|++++|||++++.++..
T Consensus        15 sL~~~l~~~~~--~~~~t~~~~~~------~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~~~~s~~~   80 (142)
T TIGR02528        15 TLTQALQGEEI--LYKKTQAVEYN------D-----GAIDTPGEYVENRRLYSALIV-TAADADVIALVQSATDPESRFP   80 (142)
T ss_pred             HHHHHHcCCcc--ccccceeEEEc------C-----eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCCCCCcCCC
Confidence            46778887776  35677654332      1     58999998     33444433 5899999999999999999865


Q ss_pred             HHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           78 VAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        78 ~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      .  .|...+     ..|+++|+||+|+.+..           ...+.+.++++..+..+++++||++|.|++++|+++.
T Consensus        81 ~--~~~~~~-----~~p~ilv~NK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        81 P--GFASIF-----VKPVIGLVTKIDLAEAD-----------VDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             h--hHHHhc-----cCCeEEEEEeeccCCcc-----------cCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            3  454432     24999999999986422           4556677778777765799999999999999999874

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.

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

Probab=99.76  E-value=2.1e-17  Score=112.39  Aligned_cols=152  Identities=22%  Similarity=0.295  Sum_probs=124.9

Q ss_pred             eehhhhhCCC--CCcccCceeeceeeEEEEC-CeEEEEEEEeCCCCccc-cccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            4 IYIICNYSLG--KQDYVPTVFDNFSANVVVD-GSTVNLGLWDTAGQEDY-NRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         4 l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~-~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      |+.+.+-|.-  ..++.||+.+.|...+.-+ +..-++.|+||+|...+ ..+-..|+.-+|++++||+..|++||+.+ 
T Consensus        25 ileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv-  103 (198)
T KOG3883|consen   25 ILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRV-  103 (198)
T ss_pred             HHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHH-
Confidence            4444444433  4668999999888766654 44557999999998877 44667799999999999999999999998 


Q ss_pred             HHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           80 KKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        80 ~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +.+...|.+..  ..+||+++|||.|+.+..          .+..+-+..||+.-.. ..+|++|.+...+-+.|..+..
T Consensus       104 ~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~----------~vd~d~A~~Wa~rEkv-kl~eVta~dR~sL~epf~~l~~  172 (198)
T KOG3883|consen  104 ELLKKEIDKHKDKKEVPIVVLANKRDRAEPR----------EVDMDVAQIWAKREKV-KLWEVTAMDRPSLYEPFTYLAS  172 (198)
T ss_pred             HHHHHHHhhccccccccEEEEechhhcccch----------hcCHHHHHHHHhhhhe-eEEEEEeccchhhhhHHHHHHH
Confidence            66667777655  479999999999997544          4889999999999998 9999999999999999999999


Q ss_pred             HHhCCchhhh
Q 030337          158 VVLQPPKQKK  167 (179)
Q Consensus       158 ~i~~~~~~~~  167 (179)
                      .+.+++.++.
T Consensus       173 rl~~pqskS~  182 (198)
T KOG3883|consen  173 RLHQPQSKST  182 (198)
T ss_pred             hccCCccccc
Confidence            9988776653

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.76  E-value=1.7e-17  Score=115.40  Aligned_cols=142  Identities=31%  Similarity=0.408  Sum_probs=112.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh-hhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK-ASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~   80 (179)
                      +|+.++..+.+...+.|+++..+. ..+..++..+.+.+||++|++.+..++..+++++++++.++|+... .+++....
T Consensus        16 tl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~   95 (161)
T TIGR00231        16 TLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILE   95 (161)
T ss_pred             HHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHhH
Confidence            467788888888888888886665 4466788778999999999999999988899999999999999988 77877644


Q ss_pred             HHHHHHhhcCC-CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           81 KWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        81 ~~~~~i~~~~~-~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      .|...+..... +.|+++++||.|+....           ........ ....+...++++||++|.|+.++|++|-
T Consensus        96 ~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-----------~~~~~~~~-~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231        96 KQTKEIIHHAESNVPIILVGNKIDLRDAK-----------LKTHVAFL-FAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             HHHHHHHHhcccCCcEEEEEEcccCCcch-----------hhHHHHHH-HhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            67777766554 89999999999996522           23333333 3334444799999999999999999863

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.

>cd04171 SelB SelB subfamily

Probab=99.74  E-value=1.6e-17  Score=117.11  Aligned_cols=138  Identities=17%  Similarity=0.117  Sum_probs=90.1

Q ss_pred             eeehhhhh---CCCCCcccC--ceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhh
Q 030337            3 FIYIICNY---SLGKQDYVP--TVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KAS   74 (179)
Q Consensus         3 ~l~~~~~~---~~f~~~~~p--t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s   74 (179)
                      +|+.+++.   +.|.+++.+  |++..+ ..+.+++ ...+++|||||+++|......+++++|++++|+|+++   +.+
T Consensus        15 sl~~~l~~~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~   92 (164)
T cd04171          15 TLIKALTGIETDRLPEEKKRGITIDLGF-AYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQT   92 (164)
T ss_pred             HHHHHHhCcccccchhhhccCceEEeee-EEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhH
Confidence            35667764   456555444  333322 3344442 3589999999999987766678899999999999987   444


Q ss_pred             HHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH---hCCCeEEEeccCCCCcHHHH
Q 030337           75 YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL---IGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      .+.+  .+   +... +..|+++|+||+|+.....        ......+..+..+.   .+. +++++||++|.|++++
T Consensus        93 ~~~~--~~---~~~~-~~~~~ilv~NK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l  157 (164)
T cd04171          93 REHL--EI---LELL-GIKRGLVVLTKADLVDEDW--------LELVEEEIRELLAGTFLADA-PIFPVSAVTGEGIEEL  157 (164)
T ss_pred             HHHH--HH---HHHh-CCCcEEEEEECccccCHHH--------HHHHHHHHHHHHHhcCcCCC-cEEEEeCCCCcCHHHH
Confidence            4443  12   2211 2249999999999965321        00112333344443   244 7999999999999999


Q ss_pred             HHHHHH
Q 030337          152 FDAAIK  157 (179)
Q Consensus       152 f~~l~~  157 (179)
                      |+.+..
T Consensus       158 ~~~l~~  163 (164)
T cd04171         158 KEYLDE  163 (164)
T ss_pred             HHHHhh
Confidence            998754

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

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

Probab=99.74  E-value=6.7e-17  Score=108.42  Aligned_cols=141  Identities=16%  Similarity=0.184  Sum_probs=106.7

Q ss_pred             eehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI   83 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~   83 (179)
                      |+.+...+.- ....||+|-++ +++.+.+  +++++||.+|+...+++|+.||.+..++|||.|..+.+..+++..++.
T Consensus        33 iLyKLkl~~~-~~~ipTvGFnv-etVtykN--~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh  108 (180)
T KOG0071|consen   33 ILYKLKLGQS-VTTIPTVGFNV-ETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELH  108 (180)
T ss_pred             hhhHHhcCCC-cccccccceeE-EEEEeee--eEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHH
Confidence            4444554444 34578887433 4455555  899999999999999999999999999999999999999999888888


Q ss_pred             HHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH---HHhCC-CeEEEeccCCCCcHHHHHHHHHHH
Q 030337           84 PELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR---KLIGS-PAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        84 ~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ..+.... .+.|+++.+||.|++...            +..++..+.   +..+. +....+||.+|.++.+.|.|+.+.
T Consensus       109 ~ii~~~em~~~~~LvlANkQDlp~A~------------~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswlsnn  176 (180)
T KOG0071|consen  109 RIINDREMRDAIILILANKQDLPDAM------------KPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLSNN  176 (180)
T ss_pred             HHhCCHhhhcceEEEEecCccccccc------------CHHHHHHHhccccccCCccEeeccccccchhHHHHHHHHHhh
Confidence            7776544 589999999999998743            333333322   22222 245679999999999999999886


Q ss_pred             Hh
Q 030337          159 VL  160 (179)
Q Consensus       159 i~  160 (179)
                      +.
T Consensus       177 ~~  178 (180)
T KOG0071|consen  177 LK  178 (180)
T ss_pred             cc
Confidence            53

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

Probab=99.73  E-value=3.8e-17  Score=110.04  Aligned_cols=130  Identities=14%  Similarity=0.141  Sum_probs=97.8

Q ss_pred             cCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEE
Q 030337           18 VPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPII   96 (179)
Q Consensus        18 ~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~pii   96 (179)
                      .||+|.+.. ++  ..+...+++||.+|+-..++.|+.||.+.+++|+|+|.+|.+...-....++..+++.. ....++
T Consensus        47 kPtigfnve-~v--~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~ll  123 (182)
T KOG0072|consen   47 KPTIGFNVE-TV--PYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLL  123 (182)
T ss_pred             CCCCCcCcc-cc--ccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEE
Confidence            566664333 22  23558999999999999999999999999999999999999977766667777777655 568899


Q ss_pred             EEEeCCCcccccccccCCCCCccccHHHHH--HHHH-HhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           97 LVGTKLDLRDDKQFFIDHPGAVPITTAQGE--ELRK-LIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        97 lv~nK~D~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +++||.|.....           ...+...  .+.+ ......++++||.+|.|++++++||.+.+.+
T Consensus       124 v~anKqD~~~~~-----------t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  124 VFANKQDYSGAL-----------TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLKS  180 (182)
T ss_pred             EEeccccchhhh-----------hHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHhc
Confidence            999999986532           1111111  1111 1122479999999999999999999998764

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

Probab=99.73  E-value=1.2e-16  Score=112.05  Aligned_cols=136  Identities=13%  Similarity=0.170  Sum_probs=97.0

Q ss_pred             eeehhhhhCCCCCcccCceee-ceeeEEEECCeEEEEEEEeCCCCcccccc------Cccccc--CccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFD-NFSANVVVDGSTVNLGLWDTAGQEDYNRL------RPLSYR--GADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~-~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~~--~~~~~i~v~d~~~~~   73 (179)
                      +|+.++....+...+.|++.. .....+.+++  ..+.+|||||++.+...      +..++.  +++++++|+|+++++
T Consensus        11 sl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~   88 (158)
T cd01879          11 TLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLE   88 (158)
T ss_pred             HHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcch
Confidence            467778777665555554432 2335566666  57899999999876643      445554  999999999999875


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      +..    .|...+...  +.|+++|+||+|+.....          +.. ....+++.++. +++++||.+|.|+.++++
T Consensus        89 ~~~----~~~~~~~~~--~~~~iiv~NK~Dl~~~~~----------~~~-~~~~~~~~~~~-~~~~iSa~~~~~~~~l~~  150 (158)
T cd01879          89 RNL----YLTLQLLEL--GLPVVVALNMIDEAEKRG----------IKI-DLDKLSELLGV-PVVPTSARKGEGIDELKD  150 (158)
T ss_pred             hHH----HHHHHHHHc--CCCEEEEEehhhhccccc----------chh-hHHHHHHhhCC-CeEEEEccCCCCHHHHHH
Confidence            533    333334333  689999999999965432          222 34566777787 899999999999999999


Q ss_pred             HHHHH
Q 030337          154 AAIKV  158 (179)
Q Consensus       154 ~l~~~  158 (179)
                      ++.+.
T Consensus       151 ~l~~~  155 (158)
T cd01879         151 AIAEL  155 (158)
T ss_pred             HHHHH
Confidence            99875

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.73  E-value=1.6e-16  Score=109.34  Aligned_cols=142  Identities=38%  Similarity=0.654  Sum_probs=105.9

Q ss_pred             eeehhhhhCCC-CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLG-KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f-~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.. ...+.||....+.......+....+.+||++|+..+...+..++++++++++|+|++++.++... ..
T Consensus        11 tl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~   89 (157)
T cd00882          11 SLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENV-KE   89 (157)
T ss_pred             HHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            45667777666 56677776444446666667788999999999998888778899999999999999999999988 45


Q ss_pred             H-HHHH-hhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHH-HHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 W-IPEL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ-GEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~-~~~i-~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      | .... .......|+++++||+|+.....          ..... .......... +++++|+.++.|+.++++++.
T Consensus        90 ~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~----------~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          90 WLLLILINKEGENIPIILVGNKIDLPEERV----------VSEEELAEQLAKELGV-PYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             HHHHHHHhhccCCCcEEEEEeccccccccc----------hHHHHHHHHHHhhcCC-cEEEEecCCCCChHHHHHHHh
Confidence            4 2222 22335899999999999975432          22221 3334444454 899999999999999999986

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

>cd01898 Obg Obg subfamily

Probab=99.73  E-value=7.2e-17  Score=114.56  Aligned_cols=110  Identities=20%  Similarity=0.192  Sum_probs=82.9

Q ss_pred             EEEEEEeCCCCcc----ccccCccc---ccCccEEEEEEeCCCh-hhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCCc
Q 030337           36 VNLGLWDTAGQED----YNRLRPLS---YRGADVFILAFSLISK-ASYENVAKKWIPELRHYA---PGVPIILVGTKLDL  104 (179)
Q Consensus        36 ~~~~i~D~~G~~~----~~~~~~~~---~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D~  104 (179)
                      ..+.+|||||+..    ...+...+   +.++|++++|+|++++ .+++.+ ..|.+.+....   .+.|+++|+||+|+
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~-~~~~~~l~~~~~~~~~~p~ivv~NK~Dl  126 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDY-KTIRNELELYNPELLEKPRIVVLNKIDL  126 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHH-HHHHHHHHHhCccccccccEEEEEchhc
Confidence            4799999999742    22233333   3459999999999999 789888 78888877654   36899999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHh-CCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLI-GSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .+..           ...+....+.... +. .++++||+++.|++++|+++.+.
T Consensus       127 ~~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         127 LDEE-----------ELFELLKELLKELWGK-PVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             CCch-----------hhHHHHHHHHhhCCCC-CEEEEecCCCCCHHHHHHHHHhh
Confidence            6543           2233444455543 44 79999999999999999999875

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=99.71  E-value=5.4e-17  Score=118.12  Aligned_cols=133  Identities=13%  Similarity=0.014  Sum_probs=91.1

Q ss_pred             eeehhhhh--CCCCCcc------------cCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEE
Q 030337            3 FIYIICNY--SLGKQDY------------VPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAF   67 (179)
Q Consensus         3 ~l~~~~~~--~~f~~~~------------~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~   67 (179)
                      +|+.+++.  +.|...+            .++.|..+. +...++++.+.+++|||||+++|...+..+++++|++++||
T Consensus        17 sL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~   96 (194)
T cd01891          17 TLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLV   96 (194)
T ss_pred             HHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEE
Confidence            46777776  7776654            234454333 44555666689999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-------hCCCeEEEe
Q 030337           68 SLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-------IGSPAYIEC  140 (179)
Q Consensus        68 d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~e~  140 (179)
                      |+++.. +... ..|+..+..  .+.|+++|+||+|+.....         ....+++..+...       .+. +++++
T Consensus        97 d~~~~~-~~~~-~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~-~iv~~  162 (194)
T cd01891          97 DASEGP-MPQT-RFVLKKALE--LGLKPIVVINKIDRPDARP---------EEVVDEVFDLFIELGATEEQLDF-PVLYA  162 (194)
T ss_pred             ECCCCc-cHHH-HHHHHHHHH--cCCCEEEEEECCCCCCCCH---------HHHHHHHHHHHHHhCCccccCcc-CEEEe
Confidence            999743 2222 233444333  2689999999999964321         1123444444432       245 78999


Q ss_pred             ccCCCCcHH
Q 030337          141 SSKTQQNVK  149 (179)
Q Consensus       141 Sa~~~~~i~  149 (179)
                      ||++|.|+.
T Consensus       163 Sa~~g~~~~  171 (194)
T cd01891         163 SAKNGWASL  171 (194)
T ss_pred             ehhcccccc
Confidence            999997773

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>cd01894 EngA1 EngA1 subfamily

Probab=99.70  E-value=2.6e-16  Score=110.02  Aligned_cols=136  Identities=18%  Similarity=0.147  Sum_probs=93.6

Q ss_pred             eeehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccc--------cCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR--------LRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.++....  +...+.++..+........++  ..+.+|||||...+..        .+...++++|++++|+|..++
T Consensus        12 sl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~   89 (157)
T cd01894          12 TLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREG   89 (157)
T ss_pred             HHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEecccc
Confidence            3555666554  444555554444455555555  6799999999987554        233467899999999999887


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+....  .+...++..  +.|+++|+||+|+.+...          .     ......++...++++|++++.|++++|
T Consensus        90 ~~~~~~--~~~~~~~~~--~~piiiv~nK~D~~~~~~----------~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~  150 (157)
T cd01894          90 LTPADE--EIAKYLRKS--KKPVILVVNKVDNIKEED----------E-----AAEFYSLGFGEPIPISAEHGRGIGDLL  150 (157)
T ss_pred             CCccHH--HHHHHHHhc--CCCEEEEEECcccCChHH----------H-----HHHHHhcCCCCeEEEecccCCCHHHHH
Confidence            655443  233344433  599999999999965331          1     223344565578999999999999999


Q ss_pred             HHHHHHH
Q 030337          153 DAAIKVV  159 (179)
Q Consensus       153 ~~l~~~i  159 (179)
                      +++++++
T Consensus       151 ~~l~~~~  157 (157)
T cd01894         151 DAILELL  157 (157)
T ss_pred             HHHHhhC
Confidence            9998753

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.70  E-value=1.9e-16  Score=132.22  Aligned_cols=115  Identities=25%  Similarity=0.305  Sum_probs=91.3

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ++..+.++||||||+++|...+..+++.+|++|+|+|+++..+++.. ..|...+.   .++|+++|+||+|+....   
T Consensus        66 ~g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~-~~~~~~~~---~~ipiIiViNKiDl~~~~---  138 (595)
T TIGR01393        66 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTL-ANVYLALE---NDLEIIPVINKIDLPSAD---  138 (595)
T ss_pred             CCCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHH-HHHHHHHH---cCCCEEEEEECcCCCccC---
Confidence            56779999999999999999899999999999999999998777766 55554433   268999999999985421   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                               ......++.+.++..  .++++||++|.|++++|+++++.+-.+
T Consensus       139 ---------~~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       139 ---------PERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             ---------HHHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCCCC
Confidence                     122334555656652  489999999999999999999987544

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.

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

Probab=99.70  E-value=3.5e-16  Score=110.75  Aligned_cols=144  Identities=15%  Similarity=0.158  Sum_probs=94.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|...+.++....+. ..+..+ +....+.+|||||++.|..++..+++.+|++++|+|+++....+..  
T Consensus        15 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~--   92 (168)
T cd01887          15 TLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTI--   92 (168)
T ss_pred             HHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHH--
Confidence            577888888887765554432222 233333 2457899999999999988888889999999999999985322221  


Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH----HhC-CCeEEEeccCCCCcHHHHHHHH
Q 030337           81 KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK----LIG-SPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~-~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      ..+..+..  .+.|+++|+||+|+.....         .........+..    ..+ ..+++++||++|.|+.++++++
T Consensus        93 ~~~~~~~~--~~~p~ivv~NK~Dl~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T cd01887          93 EAIKLAKA--ANVPFIVALNKIDKPNANP---------ERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAI  161 (168)
T ss_pred             HHHHHHHH--cCCCEEEEEEceecccccH---------HHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHH
Confidence            11222333  3689999999999864221         000111111111    111 1378999999999999999999


Q ss_pred             HHHH
Q 030337          156 IKVV  159 (179)
Q Consensus       156 ~~~i  159 (179)
                      .+..
T Consensus       162 ~~~~  165 (168)
T cd01887         162 LLLA  165 (168)
T ss_pred             HHhh
Confidence            8754

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.67  E-value=9.5e-16  Score=119.92  Aligned_cols=114  Identities=18%  Similarity=0.196  Sum_probs=87.0

Q ss_pred             EEEEEEeCCCCcc----ccccCc---ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCCcc
Q 030337           36 VNLGLWDTAGQED----YNRLRP---LSYRGADVFILAFSLISKASYENVAKKWIPELRHYA---PGVPIILVGTKLDLR  105 (179)
Q Consensus        36 ~~~~i~D~~G~~~----~~~~~~---~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D~~  105 (179)
                      ..+.+||+||.-.    ...+..   .+++.++++++|+|++++++++++ ..|...+..+.   .+.|+++|+||+|+.
T Consensus       206 ~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~-~~~~~EL~~~~~~L~~kp~IIV~NKiDL~  284 (335)
T PRK12299        206 KSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDY-KTIRNELEKYSPELADKPRILVLNKIDLL  284 (335)
T ss_pred             cEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHH-HHHHHHHHHhhhhcccCCeEEEEECcccC
Confidence            4689999999632    112222   345679999999999998889988 78988887764   368999999999996


Q ss_pred             cccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          106 DDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +...          +..+....+++..+. .++++||+++.|++++++++.+.+..
T Consensus       285 ~~~~----------~~~~~~~~~~~~~~~-~i~~iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        285 DEEE----------EREKRAALELAALGG-PVFLISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             Cchh----------HHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            5332          333344555555565 79999999999999999999987753

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.67  E-value=3.9e-16  Score=127.67  Aligned_cols=144  Identities=18%  Similarity=0.154  Sum_probs=97.0

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCc----------cccccC-cccccCccEEEEEEeC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE----------DYNRLR-PLSYRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~-~~~~~~~~~~i~v~d~   69 (179)
                      +|+.+++.+.+  ...+.+|..+.+...+.+++..  +.+|||+|..          .|..+. ..+++++|++++|+|+
T Consensus       226 SLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~--~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da  303 (472)
T PRK03003        226 SLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKT--WRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDA  303 (472)
T ss_pred             HHHHHHhCCCcccccCCCCccCCcceEEEEECCEE--EEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeC
Confidence            46778887765  2333444445556777778755  5799999953          333322 2357899999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      +++.+++++  .++..+..  .+.|+++|+||+|+.....        ......+...........+++++||++|.|++
T Consensus       304 ~~~~s~~~~--~~~~~~~~--~~~piIiV~NK~Dl~~~~~--------~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~  371 (472)
T PRK03003        304 SEPISEQDQ--RVLSMVIE--AGRALVLAFNKWDLVDEDR--------RYYLEREIDRELAQVPWAPRVNISAKTGRAVD  371 (472)
T ss_pred             CCCCCHHHH--HHHHHHHH--cCCCEEEEEECcccCChhH--------HHHHHHHHHHhcccCCCCCEEEEECCCCCCHH
Confidence            999999887  45555544  3789999999999964221        00111122222222233478999999999999


Q ss_pred             HHHHHHHHHHh
Q 030337          150 AVFDAAIKVVL  160 (179)
Q Consensus       150 ~~f~~l~~~i~  160 (179)
                      ++|+.+.+.+-
T Consensus       372 ~lf~~i~~~~~  382 (472)
T PRK03003        372 KLVPALETALE  382 (472)
T ss_pred             HHHHHHHHHHH
Confidence            99999988663

>cd01878 HflX HflX subfamily

Probab=99.67  E-value=6.9e-16  Score=113.02  Aligned_cols=137  Identities=18%  Similarity=0.155  Sum_probs=93.4

Q ss_pred             eeehhhhhCCCCC--cccCceeeceeeEEEECCeEEEEEEEeCCCCccc---------cccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQ--DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY---------NRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+..  .+.+|+... ...+.+++. ..+.+|||+|....         ...+ ..+.++|++++|+|+++
T Consensus        56 tLl~~l~~~~~~~~~~~~~t~~~~-~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~  132 (204)
T cd01878          56 TLFNALTGADVYAEDQLFATLDPT-TRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDASD  132 (204)
T ss_pred             HHHHHHhcchhccCCccceeccce-eEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEECCC
Confidence            3566777766432  234444322 233444442 37889999997321         1111 13678999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           72 KASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      +.++... ..|...+.... .+.|+++|+||+|+.+...          .     .......+. +++++||+++.|+.+
T Consensus       133 ~~~~~~~-~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~----------~-----~~~~~~~~~-~~~~~Sa~~~~gi~~  195 (204)
T cd01878         133 PDYEEQI-ETVEKVLKELGAEDIPMILVLNKIDLLDDEE----------L-----EERLEAGRP-DAVFISAKTGEGLDE  195 (204)
T ss_pred             CChhhHH-HHHHHHHHHcCcCCCCEEEEEEccccCChHH----------H-----HHHhhcCCC-ceEEEEcCCCCCHHH
Confidence            9988876 67777776654 4689999999999965331          1     133444444 799999999999999


Q ss_pred             HHHHHHHHH
Q 030337          151 VFDAAIKVV  159 (179)
Q Consensus       151 ~f~~l~~~i  159 (179)
                      ++++|.+.+
T Consensus       196 l~~~L~~~~  204 (204)
T cd01878         196 LLEAIEELL  204 (204)
T ss_pred             HHHHHHhhC
Confidence            999998753

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.66  E-value=2.2e-16  Score=115.32  Aligned_cols=138  Identities=17%  Similarity=0.097  Sum_probs=88.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCC-----------CccccccCccccc----CccEEEEEE
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAG-----------QEDYNRLRPLSYR----GADVFILAF   67 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~----~~~~~i~v~   67 (179)
                      +|+.++..+.|...+.|+.... ...+.++    .+.+|||||           ++.++..+..++.    .++++++|+
T Consensus        24 sLin~l~~~~~~~~~~~~~t~~-~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~   98 (201)
T PRK04213         24 TLVRELTGKKVRVGKRPGVTRK-PNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVV   98 (201)
T ss_pred             HHHHHHhCCCCccCCCCceeeC-ceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEE
Confidence            4678888888876666654321 2233333    589999999           5667776666654    356777777


Q ss_pred             eCCChhhHHH---------HHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC--C-
Q 030337           68 SLISKASYEN---------VAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS--P-  135 (179)
Q Consensus        68 d~~~~~s~~~---------~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-  135 (179)
                      |.++...+..         ....+...+..  .++|+++|+||+|+.+..             .+...++++.++.  . 
T Consensus        99 d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~p~iiv~NK~Dl~~~~-------------~~~~~~~~~~~~~~~~~  163 (201)
T PRK04213         99 DGKSFIEIIERWEGRGEIPIDVEMFDFLRE--LGIPPIVAVNKMDKIKNR-------------DEVLDEIAERLGLYPPW  163 (201)
T ss_pred             eCccccccccccccCCCcHHHHHHHHHHHH--cCCCeEEEEECccccCcH-------------HHHHHHHHHHhcCCccc
Confidence            7654322200         00112222222  379999999999985421             2345566666664  1 


Q ss_pred             -----eEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          136 -----AYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       136 -----~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                           .++++||++| |++++|++|.+.+..
T Consensus       164 ~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        164 RQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             cccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence                 4799999999 999999999987643

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

Probab=99.65  E-value=1.3e-15  Score=108.60  Aligned_cols=141  Identities=21%  Similarity=0.234  Sum_probs=91.2

Q ss_pred             eeehhhhhCCC-CCcccC-ceeeceeeEEEEC-CeEEEEEEEeCCCCcc----ccccC---cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG-KQDYVP-TVFDNFSANVVVD-GSTVNLGLWDTAGQED----YNRLR---PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f-~~~~~p-t~~~~~~~~~~~~-~~~~~~~i~D~~G~~~----~~~~~---~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|++++.+..+ ..++.+ |+... ...+.++ +  ..+.+|||||...    ...++   ..++++++++++|+|++++
T Consensus        11 tll~~l~~~~~~~~~~~~~t~~~~-~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~   87 (176)
T cd01881          11 TLLNALTNAKPKVANYPFTTLEPN-LGVVEVPDG--ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASED   87 (176)
T ss_pred             HHHHHHhcCCccccCCCceeecCc-ceEEEcCCC--CeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCC
Confidence            35666666654 233333 33322 2223344 4  5689999999732    22222   2347789999999999998


Q ss_pred             ------hhHHHHHHHHHHHHhhcC--------CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEE
Q 030337           73 ------ASYENVAKKWIPELRHYA--------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI  138 (179)
Q Consensus        73 ------~s~~~~~~~~~~~i~~~~--------~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (179)
                            .+++.. ..|...+....        .+.|+++|+||+|+.....          .............+. .++
T Consensus        88 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~  155 (176)
T cd01881          88 DDIGGVDPLEDY-EILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEE----------LEEELVRELALEEGA-EVV  155 (176)
T ss_pred             ccccccCHHHHH-HHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhH----------HHHHHHHHHhcCCCC-CEE
Confidence                  577776 55655555332        3699999999999965331          222212233333444 799


Q ss_pred             EeccCCCCcHHHHHHHHHHH
Q 030337          139 ECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       139 e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ++||+++.|++++++++...
T Consensus       156 ~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         156 PISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             EEehhhhcCHHHHHHHHHhh
Confidence            99999999999999998764

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

>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=99.65  E-value=5.3e-16  Score=104.04  Aligned_cols=101  Identities=29%  Similarity=0.395  Sum_probs=76.2

Q ss_pred             eeehhhhhCCCC--CcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|++++..+.+.  ..+.++.+..+. ....+......+++||++|++.+...+...+.++|++++|||++++.|++.+.
T Consensus        14 sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~   93 (119)
T PF08477_consen   14 SLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESLEYLS   93 (119)
T ss_dssp             HHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHH
T ss_pred             HHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHHHHHH
Confidence            478889988887  223333344444 45556777777999999999998888888899999999999999999999872


Q ss_pred             --HHHHHHHhhcCCCCcEEEEEeCCC
Q 030337           80 --KKWIPELRHYAPGVPIILVGTKLD  103 (179)
Q Consensus        80 --~~~~~~i~~~~~~~piilv~nK~D  103 (179)
                        ..|+..+++..+++|++|||||.|
T Consensus        94 ~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   94 QLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             HHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             HHHHHHHHHHccCCCCCEEEEEeccC
Confidence              236777777666899999999998

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.64  E-value=3.6e-15  Score=124.17  Aligned_cols=138  Identities=14%  Similarity=0.193  Sum_probs=94.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.+.+...+ ...+.+++. ..+.+|||||++.|..++...+..+|++|+|+|+++....+.. ..
T Consensus       102 SLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~-e~  179 (587)
T TIGR00487       102 SLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTI-EA  179 (587)
T ss_pred             HHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHH-HH
Confidence            56788888888766555443222 234445432 2789999999999999998899999999999999874433322 22


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC--------CCeEEEeccCCCCcHHHHHH
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG--------SPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      + .....  .++|+++++||+|+...             ..+.....+...+        -..++++||++|.|++++|+
T Consensus       180 i-~~~~~--~~vPiIVviNKiDl~~~-------------~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~  243 (587)
T TIGR00487       180 I-SHAKA--ANVPIIVAINKIDKPEA-------------NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLD  243 (587)
T ss_pred             H-HHHHH--cCCCEEEEEECcccccC-------------CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHH
Confidence            2 22222  26899999999999642             2223333332222        13689999999999999999


Q ss_pred             HHHHH
Q 030337          154 AAIKV  158 (179)
Q Consensus       154 ~l~~~  158 (179)
                      ++..+
T Consensus       244 ~I~~~  248 (587)
T TIGR00487       244 MILLQ  248 (587)
T ss_pred             hhhhh
Confidence            98753

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.64  E-value=4.1e-15  Score=111.87  Aligned_cols=119  Identities=21%  Similarity=0.178  Sum_probs=88.7

Q ss_pred             CceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEE
Q 030337           19 PTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIIL   97 (179)
Q Consensus        19 pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piil   97 (179)
                      |.+||.+.....-++..+...|.     +++..+.+.+++++|++++|||+++|. +++.+ ..|+..+..  .++|++|
T Consensus         1 ~~vGD~V~~~~~~~~~~~i~~i~-----eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l-~r~l~~~~~--~~i~~vI   72 (245)
T TIGR00157         1 LVVGDRVVWEPGNVVKVYGGAIA-----ERKNELTRPIVANIDQIVIVSSAVLPELSLNQL-DRFLVVAEA--QNIEPII   72 (245)
T ss_pred             CCCCcEEEEEecCCCceEEEEEe-----cccceEECcccccCCEEEEEEECCCCCCCHHHH-HHHHHHHHH--CCCCEEE
Confidence            34566555332212333444454     488899999999999999999999988 89988 889877654  4799999


Q ss_pred             EEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           98 VGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        98 v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      |+||+|+.++..          +..+.+..+. ..+. .++++||++|.|++++|+.+.+
T Consensus        73 V~NK~DL~~~~~----------~~~~~~~~~~-~~g~-~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        73 VLNKIDLLDDED----------MEKEQLDIYR-NIGY-QVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEECcccCCCHH----------HHHHHHHHHH-HCCC-eEEEEecCCchhHHHHHhhhcC
Confidence            999999965332          3334444444 4776 8999999999999999998764

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.64  E-value=3.1e-15  Score=121.01  Aligned_cols=134  Identities=20%  Similarity=0.157  Sum_probs=99.1

Q ss_pred             eeehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+.  +..++.+|..+.+...+.+++  +.+.+|||+|...+...+        ..+++++|++++|||++++
T Consensus       218 SLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~  295 (442)
T TIGR00450       218 SLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQP  295 (442)
T ss_pred             HHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            4677777764  456666665666667788887  557899999986654322        3578999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+++..   |+..+..  .+.|+++|+||+|+...                ....+++.++. +++++||++ .||+++|
T Consensus       296 ~s~~~~---~l~~~~~--~~~piIlV~NK~Dl~~~----------------~~~~~~~~~~~-~~~~vSak~-~gI~~~~  352 (442)
T TIGR00450       296 LTKDDF---LIIDLNK--SKKPFILVLNKIDLKIN----------------SLEFFVSSKVL-NSSNLSAKQ-LKIKALV  352 (442)
T ss_pred             CChhHH---HHHHHhh--CCCCEEEEEECccCCCc----------------chhhhhhhcCC-ceEEEEEec-CCHHHHH
Confidence            887754   6555543  36899999999999531                12344556666 789999998 6999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +.+.+.+.+
T Consensus       353 ~~L~~~i~~  361 (442)
T TIGR00450       353 DLLTQKINA  361 (442)
T ss_pred             HHHHHHHHH
Confidence            998887754

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.63  E-value=2.1e-15  Score=123.36  Aligned_cols=138  Identities=20%  Similarity=0.190  Sum_probs=94.2

Q ss_pred             eeehhhhhCCCC-CcccCcee-eceeeEEEECCeEEEEEEEeCCCCcc--------ccccCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGK-QDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQED--------YNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+.+. ....|.+. +.....+.+++  ..+.+|||||.+.        +...+..+++.+|++|+|+|+++.
T Consensus        53 SL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~  130 (472)
T PRK03003         53 TLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVG  130 (472)
T ss_pred             HHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCC
Confidence            467788877652 22333332 33445555666  4588999999863        223345578999999999999998


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .++..  ..|...++..  +.|+++|+||+|+...             ..+....+  .++....+++||++|.|++++|
T Consensus       131 ~s~~~--~~i~~~l~~~--~~piilV~NK~Dl~~~-------------~~~~~~~~--~~g~~~~~~iSA~~g~gi~eL~  191 (472)
T PRK03003        131 ATATD--EAVARVLRRS--GKPVILAANKVDDERG-------------EADAAALW--SLGLGEPHPVSALHGRGVGDLL  191 (472)
T ss_pred             CCHHH--HHHHHHHHHc--CCCEEEEEECccCCcc-------------chhhHHHH--hcCCCCeEEEEcCCCCCcHHHH
Confidence            76654  2455555543  7999999999998531             11222222  3344356799999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++++.+..
T Consensus       192 ~~i~~~l~~  200 (472)
T PRK03003        192 DAVLAALPE  200 (472)
T ss_pred             HHHHhhccc
Confidence            999998754

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.62  E-value=4.9e-15  Score=116.74  Aligned_cols=135  Identities=21%  Similarity=0.240  Sum_probs=91.8

Q ss_pred             eeehhhhhCCCC-CcccCceeeceeeEEEE-CCeEEEEEEEeCCCCc---------cccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFSANVVV-DGSTVNLGLWDTAGQE---------DYNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~~~~~~-~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.++++..+. .++..|.-+.....+.+ ++  ..+.+|||+|..         .|...+ ..+.++|++++|+|+++
T Consensus       204 SLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~--~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~VvD~s~  280 (351)
T TIGR03156       204 TLFNALTGADVYAADQLFATLDPTTRRLDLPDG--GEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHVVDASD  280 (351)
T ss_pred             HHHHHHhCCceeeccCCccccCCEEEEEEeCCC--ceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEEEECCC
Confidence            466777776543 33322323344555666 44  478999999972         232222 24789999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           72 KASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      +.+++++ ..|...+.... .+.|+++|+||+|+.....          +     .... . +..+++++||++|.|+++
T Consensus       281 ~~~~~~~-~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~----------v-----~~~~-~-~~~~~i~iSAktg~GI~e  342 (351)
T TIGR03156       281 PDREEQI-EAVEKVLEELGAEDIPQLLVYNKIDLLDEPR----------I-----ERLE-E-GYPEAVFVSAKTGEGLDL  342 (351)
T ss_pred             CchHHHH-HHHHHHHHHhccCCCCEEEEEEeecCCChHh----------H-----HHHH-h-CCCCEEEEEccCCCCHHH
Confidence            9988876 56666666544 4789999999999954221          1     1111 1 223689999999999999


Q ss_pred             HHHHHHHH
Q 030337          151 VFDAAIKV  158 (179)
Q Consensus       151 ~f~~l~~~  158 (179)
                      +++++.+.
T Consensus       343 L~~~I~~~  350 (351)
T TIGR03156       343 LLEAIAER  350 (351)
T ss_pred             HHHHHHhh
Confidence            99998764

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).

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.62  E-value=7.3e-15  Score=114.81  Aligned_cols=111  Identities=20%  Similarity=0.228  Sum_probs=83.7

Q ss_pred             EEEEEEeCCCCcccc----ccCccc---ccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcC---CCCcEEEEEeCC
Q 030337           36 VNLGLWDTAGQEDYN----RLRPLS---YRGADVFILAFSLISK---ASYENVAKKWIPELRHYA---PGVPIILVGTKL  102 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~----~~~~~~---~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~---~~~piilv~nK~  102 (179)
                      ..+.||||||.....    .+...+   ++.++++++|+|+++.   .+++++ ..|.+++..+.   .+.|++||+||+
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l-~~l~~EL~~~~~~l~~kp~IIV~NK~  283 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDY-EIIRNELKKYSPELAEKPRIVVLNKI  283 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHH-HHHHHHHHHhhhhhccCCEEEEEeCc
Confidence            578999999975322    233333   4569999999999987   677777 67777776553   378999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+....           ...+..+.+++.++. .++++||+++.|++++++++.+.+
T Consensus       284 DL~~~~-----------~~~~~~~~l~~~~~~-~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       284 DLLDEE-----------ELAELLKELKKALGK-PVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             cCCChH-----------HHHHHHHHHHHHcCC-cEEEEEccCCcCHHHHHHHHHHHh
Confidence            996532           223445556666676 799999999999999999998754

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.62  E-value=9.7e-15  Score=114.73  Aligned_cols=139  Identities=13%  Similarity=0.138  Sum_probs=93.0

Q ss_pred             eeehhhhhCCCC---CcccCceeeceeeEEEECCeEEEEEEEeCCCCc-cccccCc-------ccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGK---QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE-DYNRLRP-------LSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~---~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~~~~-------~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+.   +.+.+|. +.....+..++  .++.+|||||.. .+..+..       ..++++|++++|+|.++
T Consensus        67 TLin~l~~~k~~ivs~k~~tTr-~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~  143 (339)
T PRK15494         67 TLLNRIIGEKLSIVTPKVQTTR-SIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK  143 (339)
T ss_pred             HHHHHHhCCceeeccCCCCCcc-CcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC
Confidence            467788877764   3333342 33344555666  468999999984 3332221       24789999999999765


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKA  150 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~  150 (179)
                        ++......|+..++..  +.|+++|+||+|+...             ...++.+++...+ ...++++||++|.|+++
T Consensus       144 --s~~~~~~~il~~l~~~--~~p~IlViNKiDl~~~-------------~~~~~~~~l~~~~~~~~i~~iSAktg~gv~e  206 (339)
T PRK15494        144 --SFDDITHNILDKLRSL--NIVPIFLLNKIDIESK-------------YLNDIKAFLTENHPDSLLFPISALSGKNIDG  206 (339)
T ss_pred             --CCCHHHHHHHHHHHhc--CCCEEEEEEhhcCccc-------------cHHHHHHHHHhcCCCcEEEEEeccCccCHHH
Confidence              4444423456666544  4677899999998531             1234455555443 24799999999999999


Q ss_pred             HHHHHHHHHhC
Q 030337          151 VFDAAIKVVLQ  161 (179)
Q Consensus       151 ~f~~l~~~i~~  161 (179)
                      +|++|...+..
T Consensus       207 L~~~L~~~l~~  217 (339)
T PRK15494        207 LLEYITSKAKI  217 (339)
T ss_pred             HHHHHHHhCCC
Confidence            99999997754

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.61  E-value=4.1e-15  Score=120.80  Aligned_cols=132  Identities=20%  Similarity=0.211  Sum_probs=96.2

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCcccccc--------CcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRL--------RPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+.+  ..++..|..+.+...+.+++  ..+.+|||+|.+.+...        ...+++++|++++|+|++++
T Consensus       230 SLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~  307 (449)
T PRK05291        230 SLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEP  307 (449)
T ss_pred             HHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCC
Confidence            46677777653  44555555566666777777  56899999998764432        22468899999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .++++. ..|..     ..+.|+++|+||+|+.....          ..        ...+. .++++||++|.|+++++
T Consensus       308 ~s~~~~-~~l~~-----~~~~piiiV~NK~DL~~~~~----------~~--------~~~~~-~~i~iSAktg~GI~~L~  362 (449)
T PRK05291        308 LTEEDD-EILEE-----LKDKPVIVVLNKADLTGEID----------LE--------EENGK-PVIRISAKTGEGIDELR  362 (449)
T ss_pred             CChhHH-HHHHh-----cCCCCcEEEEEhhhccccch----------hh--------hccCC-ceEEEEeeCCCCHHHHH
Confidence            888765 44433     34689999999999964321          11        22333 78999999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++.+.+..
T Consensus       363 ~~L~~~l~~  371 (449)
T PRK05291        363 EAIKELAFG  371 (449)
T ss_pred             HHHHHHHhh
Confidence            999997753

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

Probab=99.61  E-value=1e-15  Score=106.25  Aligned_cols=131  Identities=22%  Similarity=0.307  Sum_probs=96.6

Q ss_pred             ccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcE
Q 030337           17 YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPI   95 (179)
Q Consensus        17 ~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~pi   95 (179)
                      -.||+|-+... +.+++  ..+.+||.+||+..+++|..||..+|++|+++|+++++.|+.....+-..+.... .++|+
T Consensus        53 i~~tvgLnig~-i~v~~--~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~  129 (197)
T KOG0076|consen   53 ITPTVGLNIGT-IEVCN--APLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPV  129 (197)
T ss_pred             eecccceeecc-eeecc--ceeEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCch
Confidence            45666643332 22333  5689999999999999999999999999999999999999988444444444333 58999


Q ss_pred             EEEEeCCCcccccccccCCCCCccccHHHHHHHH---HHhCC--CeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           96 ILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR---KLIGS--PAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        96 ilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~--~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ++.+||.|+.+..            +..+.....   +..+.  ..+..+||.+|.||++...|+++.+-.+
T Consensus       130 L~lankqd~q~~~------------~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  130 LVLANKQDLQNAM------------EAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhcchhhhhhhh------------hHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            9999999997643            222333222   22222  3578899999999999999999987654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.61  E-value=1.5e-14  Score=117.14  Aligned_cols=141  Identities=21%  Similarity=0.192  Sum_probs=94.8

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC-----------cccccCccEEEEEEeC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR-----------PLSYRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------~~~~~~~~~~i~v~d~   69 (179)
                      +|+.+++.+..  ..++.+|..+.+...+..++.  .+.+|||||..++....           ..+++.+|++++|+|+
T Consensus       187 sLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~  264 (429)
T TIGR03594       187 TLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDA  264 (429)
T ss_pred             HHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEEC
Confidence            35666665542  344444555555555666664  68899999986654432           2357899999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH-HHHH---HhCCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE-ELRK---LIGSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~~~~e~Sa~~~  145 (179)
                      +++.+.++.  .+...+.+.  +.|+++|+||+|+....           ...++.. .+..   ..+..+++++||++|
T Consensus       265 ~~~~~~~~~--~~~~~~~~~--~~~iiiv~NK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g  329 (429)
T TIGR03594       265 TEGITEQDL--RIAGLILEA--GKALVIVVNKWDLVKDE-----------KTREEFKKELRRKLPFLDFAPIVFISALTG  329 (429)
T ss_pred             CCCccHHHH--HHHHHHHHc--CCcEEEEEECcccCCCH-----------HHHHHHHHHHHHhcccCCCCceEEEeCCCC
Confidence            999888775  444444443  68999999999996211           1111211 2222   223348999999999


Q ss_pred             CcHHHHHHHHHHHHh
Q 030337          146 QNVKAVFDAAIKVVL  160 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~  160 (179)
                      .|++++|+++.+.+.
T Consensus       330 ~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       330 QGVDKLLDAIDEVYE  344 (429)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999888654

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.58  E-value=1.3e-14  Score=122.87  Aligned_cols=140  Identities=14%  Similarity=0.193  Sum_probs=95.2

Q ss_pred             eeehhhhhCCCCCcccCcee---eceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF---DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|+.++....|.....+.+.   ..+......++....+.+|||||++.|..++..++..+|++|+|+|+++....+.. 
T Consensus       259 SLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~-  337 (742)
T CHL00189        259 TLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTI-  337 (742)
T ss_pred             HHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhH-
Confidence            46677777777655443332   12233344455668999999999999999998899999999999999885333322 


Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH-------HHHhC-CCeEEEeccCCCCcHHHH
Q 030337           80 KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL-------RKLIG-SPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        80 ~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~-~~~~~e~Sa~~~~~i~~~  151 (179)
                      ..| ..+..  .++|+++++||+|+....             .+...+.       ...++ ..+++++||++|.|++++
T Consensus       338 E~I-~~~k~--~~iPiIVViNKiDl~~~~-------------~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeL  401 (742)
T CHL00189        338 EAI-NYIQA--ANVPIIVAINKIDKANAN-------------TERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKL  401 (742)
T ss_pred             HHH-HHHHh--cCceEEEEEECCCccccC-------------HHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHH
Confidence            222 12222  368999999999996422             1111111       22233 247999999999999999


Q ss_pred             HHHHHHHH
Q 030337          152 FDAAIKVV  159 (179)
Q Consensus       152 f~~l~~~i  159 (179)
                      |+++....
T Consensus       402 le~I~~l~  409 (742)
T CHL00189        402 LETILLLA  409 (742)
T ss_pred             HHhhhhhh
Confidence            99988753

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.58  E-value=2.3e-14  Score=103.16  Aligned_cols=114  Identities=21%  Similarity=0.236  Sum_probs=84.8

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      ...+.+|||||+..+...+..+++.+|++++|+|++++.+....  .++..+..  .+.|+++|+||+|+.....     
T Consensus        61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~--~~~~~~~~--~~~~i~iv~nK~D~~~~~~-----  131 (189)
T cd00881          61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTR--EHLRIARE--GGLPIIVAINKIDRVGEED-----  131 (189)
T ss_pred             CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHH--HHHHHHHH--CCCCeEEEEECCCCcchhc-----
Confidence            46899999999998888888899999999999999987765543  44444444  3799999999999975221     


Q ss_pred             CCCccccHHHHHHHHHHhC-------------CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          115 PGAVPITTAQGEELRKLIG-------------SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~-------------~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                         ......+..+..+..+             ..+++++||++|.|+++++.++.+.+-
T Consensus       132 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         132 ---LEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             ---HHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence               0112233334443322             347899999999999999999998763

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.58  E-value=3e-14  Score=108.79  Aligned_cols=141  Identities=12%  Similarity=0.025  Sum_probs=93.8

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccc--------cCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR--------LRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+.+.  ....+|...........++  .++.+|||||......        ....+++++|++++|+|+++.
T Consensus        15 TLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~   92 (270)
T TIGR00436        15 TLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQW   92 (270)
T ss_pred             HHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence            356677766553  2333444433322222233  5689999999754211        123467899999999999988


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+.+   ..+...+...  +.|+++|+||+|+.+..           ...+....++...+...++++||++|.|+++++
T Consensus        93 ~~~~---~~i~~~l~~~--~~p~ilV~NK~Dl~~~~-----------~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~  156 (270)
T TIGR00436        93 NGDG---EFVLTKLQNL--KRPVVLTRNKLDNKFKD-----------KLLPLIDKYAILEDFKDIVPISALTGDNTSFLA  156 (270)
T ss_pred             CchH---HHHHHHHHhc--CCCEEEEEECeeCCCHH-----------HHHHHHHHHHhhcCCCceEEEecCCCCCHHHHH
Confidence            7764   2344455443  68999999999996422           222344455555555578999999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++.+.+-.
T Consensus       157 ~~l~~~l~~  165 (270)
T TIGR00436       157 AFIEVHLPE  165 (270)
T ss_pred             HHHHHhCCC
Confidence            999987754

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

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

Probab=99.57  E-value=1.1e-14  Score=98.03  Aligned_cols=135  Identities=21%  Similarity=0.249  Sum_probs=100.1

Q ss_pred             CCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC
Q 030337           11 SLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA   90 (179)
Q Consensus        11 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~   90 (179)
                      +.-..+..||-|- -.+.+..++ .+.+++||++|+...++.|..||.+.|++|||.|.+|...|+++..++.+.+....
T Consensus        39 sED~~hltpT~GF-n~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeK  116 (185)
T KOG0074|consen   39 SEDPRHLTPTNGF-NTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEK  116 (185)
T ss_pred             cCChhhccccCCc-ceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhh
Confidence            3344556777763 234555544 47899999999999999999999999999999999999999998777777776655


Q ss_pred             -CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH--HH-HhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           91 -PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL--RK-LIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        91 -~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                       ..+|+++.+||.|+...-.          ++ +.+..+  +- ....+.+.+|||.++.++....+|+...
T Consensus       117 l~~vpvlIfankQdlltaa~----------~e-eia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~sn  177 (185)
T KOG0074|consen  117 LAEVPVLIFANKQDLLTAAK----------VE-EIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQSN  177 (185)
T ss_pred             hhccceeehhhhhHHHhhcc----------hH-HHHHhcchhhhhhceEEeeeCccccccCccCcchhhhcC
Confidence             6899999999999965331          11 122211  11 1122467889999999999998888753

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.57  E-value=3e-14  Score=119.11  Aligned_cols=137  Identities=15%  Similarity=0.181  Sum_probs=96.6

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCcccccc------Ccccc--cCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNRL------RPLSY--RGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~~~~i~v~d~~~~~   73 (179)
                      +|+.++.+..+.-...|... +.....+.+++  ..+++|||||++.+...      ...++  +++|++++|+|.++.+
T Consensus         9 SL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~le   86 (591)
T TIGR00437         9 TLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLE   86 (591)
T ss_pred             HHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcch
Confidence            46777877776444444443 23334555666  45799999999887654      22333  4799999999999754


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ..    ..+..++.+.  +.|+++|+||+|+.++..          +. .+.+.+.+.++. +++++||++|.|++++++
T Consensus        87 r~----l~l~~ql~~~--~~PiIIVlNK~Dl~~~~~----------i~-~d~~~L~~~lg~-pvv~tSA~tg~Gi~eL~~  148 (591)
T TIGR00437        87 RN----LYLTLQLLEL--GIPMILALNLVDEAEKKG----------IR-IDEEKLEERLGV-PVVPTSATEGRGIERLKD  148 (591)
T ss_pred             hh----HHHHHHHHhc--CCCEEEEEehhHHHHhCC----------Ch-hhHHHHHHHcCC-CEEEEECCCCCCHHHHHH
Confidence            32    1233333333  799999999999965432          33 346778888897 899999999999999999


Q ss_pred             HHHHHH
Q 030337          154 AAIKVV  159 (179)
Q Consensus       154 ~l~~~i  159 (179)
                      ++.+..
T Consensus       149 ~i~~~~  154 (591)
T TIGR00437       149 AIRKAI  154 (591)
T ss_pred             HHHHHh
Confidence            998764

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.57  E-value=4.1e-14  Score=120.76  Aligned_cols=142  Identities=15%  Similarity=0.216  Sum_probs=92.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.+...+.+.+-... ...+.+++  ..+.||||||++.|..++...++.+|++|+|+|+++...-+.. ..
T Consensus       305 SLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~-e~  381 (787)
T PRK05306        305 SLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTI-EA  381 (787)
T ss_pred             HHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHH-HH
Confidence            46677777777655444332111 13344555  5789999999999999998889999999999999984322222 22


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHH--HHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA--QGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      | ..+..  .++|++|++||+|+...+.        ..+..+  ....++..++ ..+++++||++|.|++++|+++...
T Consensus       382 i-~~a~~--~~vPiIVviNKiDl~~a~~--------e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        382 I-NHAKA--AGVPIIVAINKIDKPGANP--------DRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             H-HHHHh--cCCcEEEEEECccccccCH--------HHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            2 12222  2699999999999964210        001110  0111233333 2379999999999999999998753

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.57  E-value=2.1e-14  Score=119.85  Aligned_cols=140  Identities=16%  Similarity=0.139  Sum_probs=98.6

Q ss_pred             eehhhhh---CCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHH
Q 030337            4 IYIICNY---SLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYE   76 (179)
Q Consensus         4 l~~~~~~---~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~   76 (179)
                      |+.++..   +.|.+++.+++...+. ..+..++  ..+.+||+||+++|.......+.++|++++|+|+++   +.+++
T Consensus        16 Li~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~e   93 (581)
T TIGR00475        16 LLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGE   93 (581)
T ss_pred             HHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHH
Confidence            5566663   5676666665543332 3455555  789999999999998888888999999999999998   45555


Q ss_pred             HHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC---CCeEEEeccCCCCcHHHHH
Q 030337           77 NVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG---SPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        77 ~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+  .+   +...  ++| +++|+||+|+.+...        .....++...+.+..+   ..+++++||++|.|+++++
T Consensus        94 hl--~i---l~~l--gi~~iIVVlNK~Dlv~~~~--------~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~  158 (581)
T TIGR00475        94 HL--AV---LDLL--GIPHTIVVITKADRVNEEE--------IKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELK  158 (581)
T ss_pred             HH--HH---HHHc--CCCeEEEEEECCCCCCHHH--------HHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHH
Confidence            44  22   2222  567 999999999965331        0012344556665543   2379999999999999999


Q ss_pred             HHHHHHHh
Q 030337          153 DAAIKVVL  160 (179)
Q Consensus       153 ~~l~~~i~  160 (179)
                      ..+...+-
T Consensus       159 ~~L~~l~~  166 (581)
T TIGR00475       159 KELKNLLE  166 (581)
T ss_pred             HHHHHHHH
Confidence            98877554

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.56  E-value=3.1e-14  Score=115.55  Aligned_cols=136  Identities=20%  Similarity=0.178  Sum_probs=91.9

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCcc--------ccccCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQED--------YNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.++..+..  ..++.++..+.....+.+++  +.+.+|||||.+.        +......+++++|++++|+|++++
T Consensus        16 tL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~   93 (435)
T PRK00093         16 TLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAG   93 (435)
T ss_pred             HHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCC
Confidence            35666766653  34444443455556666777  7899999999986        222234568899999999999986


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+..+.  .+...+++.  +.|+++|+||+|+....              ....++ ..++...++++||++|.|+.++|
T Consensus        94 ~~~~~~--~~~~~l~~~--~~piilv~NK~D~~~~~--------------~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~  154 (435)
T PRK00093         94 LTPADE--EIAKILRKS--NKPVILVVNKVDGPDEE--------------ADAYEF-YSLGLGEPYPISAEHGRGIGDLL  154 (435)
T ss_pred             CCHHHH--HHHHHHHHc--CCcEEEEEECccCccch--------------hhHHHH-HhcCCCCCEEEEeeCCCCHHHHH
Confidence            544332  222233333  68999999999974311              122222 34566468999999999999999


Q ss_pred             HHHHHHH
Q 030337          153 DAAIKVV  159 (179)
Q Consensus       153 ~~l~~~i  159 (179)
                      +.++...
T Consensus       155 ~~I~~~~  161 (435)
T PRK00093        155 DAILEEL  161 (435)
T ss_pred             HHHHhhC
Confidence            9998843

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

Probab=99.55  E-value=1.7e-14  Score=105.73  Aligned_cols=112  Identities=19%  Similarity=0.164  Sum_probs=78.7

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh----hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK----ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      .++.+|||||+++|...+...+.++|++++|+|++++    .+++.+ .    .+... ...|+++|+||+|+.....  
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l-~----~~~~~-~~~~iiivvNK~Dl~~~~~--  154 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHL-A----ALEIM-GLKHIIIVQNKIDLVKEEQ--  154 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHH-H----HHHHc-CCCcEEEEEEchhccCHHH--
Confidence            6799999999999877777778899999999999974    233332 2    22221 2357999999999964221  


Q ss_pred             cCCCCCccccHHHHHHHHHHh---CCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLI---GSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                            .....+...++++..   +. +++++||++|.|++++|+++.+.+-.+
T Consensus       155 ------~~~~~~~i~~~~~~~~~~~~-~i~~vSA~~g~gi~~L~~~l~~~l~~~  201 (203)
T cd01888         155 ------ALENYEQIKKFVKGTIAENA-PIIPISAQLKYNIDVLLEYIVKKIPTP  201 (203)
T ss_pred             ------HHHHHHHHHHHHhccccCCC-cEEEEeCCCCCCHHHHHHHHHHhCCCC
Confidence                  001123333444332   33 789999999999999999999877554

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.55  E-value=3.8e-14  Score=118.55  Aligned_cols=115  Identities=23%  Similarity=0.294  Sum_probs=88.9

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      +++.+.++||||||+.+|...+..+++.+|++|+|+|+++....+.. ..|.....   .+.|+++|+||+|+....   
T Consensus        70 dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~-~~~~~~~~---~~lpiIvViNKiDl~~a~---  142 (600)
T PRK05433         70 DGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTL-ANVYLALE---NDLEIIPVLNKIDLPAAD---  142 (600)
T ss_pred             CCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHH-HHHHHHHH---CCCCEEEEEECCCCCccc---
Confidence            56679999999999999998888999999999999999987766655 45543332   268999999999986422   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                               ......++.+.+++.  .++.+||++|.|++++++++++.+-.+
T Consensus       143 ---------~~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        143 ---------PERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             ---------HHHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence                     112233444555552  489999999999999999999877543

>cd01889 SelB_euk SelB subfamily

Probab=99.55  E-value=3.7e-14  Score=103.03  Aligned_cols=117  Identities=15%  Similarity=0.105  Sum_probs=76.3

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccccc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI  112 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~  112 (179)
                      ++.+.+.+|||||+..+........+.+|++++|+|+++..+.+.. ..+. ....  .+.|+++++||+|+.....   
T Consensus        65 ~~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~-~~~~-~~~~--~~~~~iiv~NK~Dl~~~~~---  137 (192)
T cd01889          65 EENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTA-ECLV-IGEI--LCKKLIVVLNKIDLIPEEE---  137 (192)
T ss_pred             ccCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHH-HHHH-HHHH--cCCCEEEEEECcccCCHHH---
Confidence            3467899999999965433222335678999999999986554443 2222 1111  2579999999999964221   


Q ss_pred             CCCCCccccHHHHHHH-HHH------hCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          113 DHPGAVPITTAQGEEL-RKL------IGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       113 ~~~~~~~~~~~~~~~~-~~~------~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                           .....++..+. ...      .+. +++++||++|.|++++++++..++.-+
T Consensus       138 -----~~~~~~~~~~~l~~~~~~~~~~~~-~vi~iSa~~g~gi~~L~~~l~~~~~~~  188 (192)
T cd01889         138 -----RERKIEKMKKKLQKTLEKTRFKNS-PIIPVSAKPGGGEAELGKDLNNLIVLP  188 (192)
T ss_pred             -----HHHHHHHHHHHHHHHHHhcCcCCC-CEEEEeccCCCCHHHHHHHHHhccccc
Confidence                 01112222221 111      233 799999999999999999999987643

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.54  E-value=2.3e-14  Score=101.11  Aligned_cols=102  Identities=19%  Similarity=0.109  Sum_probs=75.7

Q ss_pred             EEeCCCCccccccC----cccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           40 LWDTAGQEDYNRLR----PLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        40 i~D~~G~~~~~~~~----~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +|||||.......+    ...++++|++++|+|+++..++..   .|+..+   ..+.|+++++||+|+.+         
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~---~~~~~~---~~~~~ii~v~nK~Dl~~---------  105 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRLP---AGLLDI---GVSKRQIAVISKTDMPD---------  105 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccC---HHHHhc---cCCCCeEEEEEccccCc---------
Confidence            79999973222111    123789999999999999887632   343333   23679999999999854         


Q ss_pred             CCccccHHHHHHHHHHhCC-CeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          116 GAVPITTAQGEELRKLIGS-PAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                          ...+...++++.++. .+++++||++|.|++++|+.+.+.+.
T Consensus       106 ----~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~  147 (158)
T PRK15467        106 ----ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTK  147 (158)
T ss_pred             ----ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhch
Confidence                334566777777775 47999999999999999999987654

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

Probab=99.53  E-value=1.8e-13  Score=95.38  Aligned_cols=130  Identities=22%  Similarity=0.238  Sum_probs=86.8

Q ss_pred             eehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCcccccc--------CcccccCccEEEEEEeCCChh
Q 030337            4 IYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRL--------RPLSYRGADVFILAFSLISKA   73 (179)
Q Consensus         4 l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~~~~i~v~d~~~~~   73 (179)
                      |+.++....+  ...+.++..+.....+.+++  ..+.+|||+|...+...        ....+.++|++++|+|++++.
T Consensus        17 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~   94 (157)
T cd04164          17 LLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGL   94 (157)
T ss_pred             HHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCC
Confidence            4455555543  22232332232233444454  57899999998665432        224677999999999999988


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      +..+. ..+..     ..+.|+++|+||+|+.+...          .       .....+ .+++++||+++.|++++++
T Consensus        95 ~~~~~-~~~~~-----~~~~~vi~v~nK~D~~~~~~----------~-------~~~~~~-~~~~~~Sa~~~~~v~~l~~  150 (157)
T cd04164          95 DEEDL-EILEL-----PADKPIIVVLNKSDLLPDSE----------L-------LSLLAG-KPIIAISAKTGEGLDELKE  150 (157)
T ss_pred             CHHHH-HHHHh-----hcCCCEEEEEEchhcCCccc----------c-------ccccCC-CceEEEECCCCCCHHHHHH
Confidence            87766 32222     34799999999999975432          1       223334 3799999999999999999


Q ss_pred             HHHHHH
Q 030337          154 AAIKVV  159 (179)
Q Consensus       154 ~l~~~i  159 (179)
                      ++.+.+
T Consensus       151 ~l~~~~  156 (157)
T cd04164         151 ALLELA  156 (157)
T ss_pred             HHHHhh
Confidence            988753

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.52  E-value=7.6e-14  Score=113.06  Aligned_cols=138  Identities=20%  Similarity=0.205  Sum_probs=95.5

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCc--------cccccCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE--------DYNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+..  ..++.++..+.....+.+++  ..+.+|||||..        .+......+++.+|++++|+|..+.
T Consensus        14 tL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~   91 (429)
T TIGR03594        14 TLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREG   91 (429)
T ss_pred             HHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCC
Confidence            35667766553  34444444445556666777  469999999963        3334455678999999999999986


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+..+.  .+...+++.  +.|+++|+||+|+.....              ...+ +..++..+++++||++|.|+.+++
T Consensus        92 ~~~~d~--~i~~~l~~~--~~piilVvNK~D~~~~~~--------------~~~~-~~~lg~~~~~~vSa~~g~gv~~ll  152 (429)
T TIGR03594        92 LTPEDE--EIAKWLRKS--GKPVILVANKIDGKKEDA--------------VAAE-FYSLGFGEPIPISAEHGRGIGDLL  152 (429)
T ss_pred             CCHHHH--HHHHHHHHh--CCCEEEEEECccCCcccc--------------cHHH-HHhcCCCCeEEEeCCcCCChHHHH
Confidence            555442  334444443  689999999999864321              1112 345676679999999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++.+.+..
T Consensus       153 ~~i~~~l~~  161 (429)
T TIGR03594       153 DAILELLPE  161 (429)
T ss_pred             HHHHHhcCc
Confidence            999988754

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.

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

Probab=99.52  E-value=4.2e-14  Score=103.69  Aligned_cols=104  Identities=12%  Similarity=0.124  Sum_probs=77.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceee-EEEECCeEEEEEEEeCCCCccccccCcccccCc-cEEEEEEeCCCh-hhHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGA-DVFILAFSLISK-ASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~-~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-~~~i~v~d~~~~-~s~~~~~   79 (179)
                      +|+.++..+.|.+.+.++.. .+.. .....+..+.+.|||+||+++++..+..+++++ +++|+|+|+++. .++..+.
T Consensus        15 sL~~~l~~~~~~~t~~s~~~-~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~   93 (203)
T cd04105          15 ALFTKLTTGKYRSTVTSIEP-NVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVA   93 (203)
T ss_pred             HHHHHHhcCCCCCccCcEee-cceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHH
Confidence            47788999999887655532 2222 121124457899999999999998888899998 999999999998 6888774


Q ss_pred             HHHHHHHhh---cCCCCcEEEEEeCCCcccc
Q 030337           80 KKWIPELRH---YAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        80 ~~~~~~i~~---~~~~~piilv~nK~D~~~~  107 (179)
                      ..|+..+..   ..+.+|+++++||+|+...
T Consensus        94 ~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          94 EFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             HHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            444444332   2258999999999999754

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.51  E-value=7.6e-14  Score=119.25  Aligned_cols=141  Identities=20%  Similarity=0.179  Sum_probs=96.5

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCcc----------ccccC-cccccCccEEEEEEeC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQED----------YNRLR-PLSYRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~-~~~~~~~~~~i~v~d~   69 (179)
                      +|+.+++.+.+  ..++.+|..+.+...+.+++..  +.+|||+|..+          |..+. ...++.+|++++|+|+
T Consensus       465 SLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDa  542 (712)
T PRK09518        465 SLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDA  542 (712)
T ss_pred             HHHHHHhCccccccCCCCCCCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEEC
Confidence            46778887764  4556666666666667777755  56999999632          22111 2347899999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH-HHHH---HhCCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE-ELRK---LIGSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~~~~e~Sa~~~  145 (179)
                      ++..++++.  .+...+...  +.|+++|+||+|+.+..            ..+... .+..   .....+.+.+||++|
T Consensus       543 t~~~s~~~~--~i~~~~~~~--~~piIiV~NK~DL~~~~------------~~~~~~~~~~~~l~~~~~~~ii~iSAktg  606 (712)
T PRK09518        543 SQPISEQDL--KVMSMAVDA--GRALVLVFNKWDLMDEF------------RRQRLERLWKTEFDRVTWARRVNLSAKTG  606 (712)
T ss_pred             CCCCCHHHH--HHHHHHHHc--CCCEEEEEEchhcCChh------------HHHHHHHHHHHhccCCCCCCEEEEECCCC
Confidence            999888886  344444433  68999999999996422            111111 1111   122346789999999


Q ss_pred             CcHHHHHHHHHHHHhC
Q 030337          146 QNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~~  161 (179)
                      .|++++|+.+.+.+.+
T Consensus       607 ~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        607 WHTNRLAPAMQEALES  622 (712)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999887654

>cd01895 EngA2 EngA2 subfamily

Probab=99.51  E-value=9e-13  Score=93.25  Aligned_cols=139  Identities=22%  Similarity=0.223  Sum_probs=87.4

Q ss_pred             eehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCcccccc-----------CcccccCccEEEEEEeCC
Q 030337            4 IYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRL-----------RPLSYRGADVFILAFSLI   70 (179)
Q Consensus         4 l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~~~~~~~~~~~i~v~d~~   70 (179)
                      |+.+++.+.+.  .+..++........+..++.  .+.+|||+|.......           ....++++|++++|+|.+
T Consensus        18 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~   95 (174)
T cd01895          18 LVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDAT   95 (174)
T ss_pred             HHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCC
Confidence            55666665432  22222322333344555663  4789999997543211           112467899999999999


Q ss_pred             ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHH-HHHHHHHhC---CCeEEEeccCCCC
Q 030337           71 SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ-GEELRKLIG---SPAYIECSSKTQQ  146 (179)
Q Consensus        71 ~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~e~Sa~~~~  146 (179)
                      ++.+....  .+...+...  +.|+++++||+|+.....          ...+. ...+.+.++   ..+++++||+++.
T Consensus        96 ~~~~~~~~--~~~~~~~~~--~~~~iiv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  161 (174)
T cd01895          96 EGITEQDL--RIAGLILEE--GKALVIVVNKWDLVEKDS----------KTMKEFKKEIRRKLPFLDYAPIVFISALTGQ  161 (174)
T ss_pred             CCcchhHH--HHHHHHHhc--CCCEEEEEeccccCCccH----------HHHHHHHHHHHhhcccccCCceEEEeccCCC
Confidence            99887654  344444332  689999999999965321          12222 222223332   2479999999999


Q ss_pred             cHHHHHHHHHHH
Q 030337          147 NVKAVFDAAIKV  158 (179)
Q Consensus       147 ~i~~~f~~l~~~  158 (179)
                      |+.++++.+.+.
T Consensus       162 ~i~~~~~~l~~~  173 (174)
T cd01895         162 GVDKLFDAIDEV  173 (174)
T ss_pred             CHHHHHHHHHHh
Confidence            999999998764

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.50  E-value=1.6e-13  Score=99.65  Aligned_cols=143  Identities=18%  Similarity=0.094  Sum_probs=91.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCC----------ccccccCcccccC---ccEEEEEEeC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQ----------EDYNRLRPLSYRG---ADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~~~~~~---~~~~i~v~d~   69 (179)
                      +|+.+++.+.|.+.+.|+.|.......  ......+.||||||.          +.+..+...+++.   ++++++++|.
T Consensus        39 sli~~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~  116 (196)
T PRK00454         39 SLINALTNRKNLARTSKTPGRTQLINF--FEVNDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDS  116 (196)
T ss_pred             HHHHHHhCCCCcccccCCCCceeEEEE--EecCCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEec
Confidence            577888888888888888764332211  111267999999994          2333334445554   4678889998


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      +++.+....  .+...+...  +.|+++++||+|+.....        .....+.+......... .++++||+++.|++
T Consensus       117 ~~~~~~~~~--~i~~~l~~~--~~~~iiv~nK~Dl~~~~~--------~~~~~~~i~~~l~~~~~-~~~~~Sa~~~~gi~  183 (196)
T PRK00454        117 RHPLKELDL--QMIEWLKEY--GIPVLIVLTKADKLKKGE--------RKKQLKKVRKALKFGDD-EVILFSSLKKQGID  183 (196)
T ss_pred             CCCCCHHHH--HHHHHHHHc--CCcEEEEEECcccCCHHH--------HHHHHHHHHHHHHhcCC-ceEEEEcCCCCCHH
Confidence            876554432  222233322  689999999999964321        01112223344443344 78999999999999


Q ss_pred             HHHHHHHHHHh
Q 030337          150 AVFDAAIKVVL  160 (179)
Q Consensus       150 ~~f~~l~~~i~  160 (179)
                      ++++.+.+.+.
T Consensus       184 ~l~~~i~~~~~  194 (196)
T PRK00454        184 ELRAAIAKWLA  194 (196)
T ss_pred             HHHHHHHHHhc
Confidence            99999987654

>PRK11058 GTPase HflX; Provisional

Probab=99.50  E-value=3e-13  Score=109.02  Aligned_cols=142  Identities=18%  Similarity=0.131  Sum_probs=90.3

Q ss_pred             eeehhhhhCCCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCccc--cccCc------ccccCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY--NRLRP------LSYRGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~~~------~~~~~~~~~i~v~d~~~~~   73 (179)
                      +|+.+++...+. .+...+.-+.....+.+++. ..+.+|||+|..+.  ...+.      ..++++|++++|+|++++.
T Consensus       212 SLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~  290 (426)
T PRK11058        212 TLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVR  290 (426)
T ss_pred             HHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCcc
Confidence            356666655442 22222222233344555542 25679999998432  11222      2468999999999999998


Q ss_pred             hHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           74 SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      +++.+ ..|...+.... .+.|+++|+||+|+....           ...  ..  ....+...++.+||++|.|+++++
T Consensus       291 ~~e~l-~~v~~iL~el~~~~~pvIiV~NKiDL~~~~-----------~~~--~~--~~~~~~~~~v~ISAktG~GIdeL~  354 (426)
T PRK11058        291 VQENI-EAVNTVLEEIDAHEIPTLLVMNKIDMLDDF-----------EPR--ID--RDEENKPIRVWLSAQTGAGIPLLF  354 (426)
T ss_pred             HHHHH-HHHHHHHHHhccCCCCEEEEEEcccCCCch-----------hHH--HH--HHhcCCCceEEEeCCCCCCHHHHH
Confidence            88876 44544444433 379999999999995421           111  11  112344335889999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++.+.+..
T Consensus       355 e~I~~~l~~  363 (426)
T PRK11058        355 QALTERLSG  363 (426)
T ss_pred             HHHHHHhhh
Confidence            999998753

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.50  E-value=6.3e-13  Score=106.78  Aligned_cols=111  Identities=20%  Similarity=0.244  Sum_probs=83.7

Q ss_pred             EEEEEEeCCCCcc----ccccCccc---ccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcC---CCCcEEEEEeCC
Q 030337           36 VNLGLWDTAGQED----YNRLRPLS---YRGADVFILAFSLISK---ASYENVAKKWIPELRHYA---PGVPIILVGTKL  102 (179)
Q Consensus        36 ~~~~i~D~~G~~~----~~~~~~~~---~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~---~~~piilv~nK~  102 (179)
                      ..+.+||+||...    ...+...+   ++.++++++|+|+++.   .+++++ ..|...+..+.   .+.|++||+||+
T Consensus       206 ~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~-~~i~~EL~~y~~~L~~kP~IVV~NK~  284 (424)
T PRK12297        206 RSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDY-EKINKELKLYNPRLLERPQIVVANKM  284 (424)
T ss_pred             ceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHH-HHHHHHHhhhchhccCCcEEEEEeCC
Confidence            5789999999643    22233344   4569999999999865   577776 67777777654   378999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      |+..              ..+....+.+.++. +++++||+++.|++++++++.+.+...
T Consensus       285 DL~~--------------~~e~l~~l~~~l~~-~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        285 DLPE--------------AEENLEEFKEKLGP-KVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             CCcC--------------CHHHHHHHHHHhCC-cEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            9832              12345666666675 799999999999999999999877543

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.48  E-value=4.4e-13  Score=114.63  Aligned_cols=137  Identities=19%  Similarity=0.190  Sum_probs=88.8

Q ss_pred             eeehhhhhCCC--CCcccCce-eeceeeEEEECCeEEEEEEEeCCCCcc--------ccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLG--KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQED--------YNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~-~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+  .+. .|.+ -+.......+++  ..+.+|||||.+.        +......+++.+|++|+|+|+++
T Consensus       290 SL~n~l~~~~~~iv~~-~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~  366 (712)
T PRK09518        290 TLVNRILGRREAVVED-TPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQV  366 (712)
T ss_pred             HHHHHHhCCCceeecC-CCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            46677776554  222 2222 233333444555  5688999999764        22233446789999999999987


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      ..+..+  ..|...++..  +.|+++|+||+|+....              .....+ ..++....+++||++|.|+.++
T Consensus       367 ~~~~~d--~~i~~~Lr~~--~~pvIlV~NK~D~~~~~--------------~~~~~~-~~lg~~~~~~iSA~~g~GI~eL  427 (712)
T PRK09518        367 GLTSTD--ERIVRMLRRA--GKPVVLAVNKIDDQASE--------------YDAAEF-WKLGLGEPYPISAMHGRGVGDL  427 (712)
T ss_pred             CCCHHH--HHHHHHHHhc--CCCEEEEEECcccccch--------------hhHHHH-HHcCCCCeEEEECCCCCCchHH
Confidence            543332  2455555543  79999999999985311              111222 1234445689999999999999


Q ss_pred             HHHHHHHHhC
Q 030337          152 FDAAIKVVLQ  161 (179)
Q Consensus       152 f~~l~~~i~~  161 (179)
                      |++++..+..
T Consensus       428 l~~i~~~l~~  437 (712)
T PRK09518        428 LDEALDSLKV  437 (712)
T ss_pred             HHHHHHhccc
Confidence            9999998754

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

Probab=99.47  E-value=3.4e-13  Score=112.33  Aligned_cols=115  Identities=21%  Similarity=0.265  Sum_probs=75.9

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      .+.+|||||++.|..++..+++.+|++++|+|+++   +.+++.+ .    .++..  ++|+++++||+|+.........
T Consensus        70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i-~----~l~~~--~vpiIVv~NK~Dl~~~~~~~~~  142 (590)
T TIGR00491        70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEAL-N----ILRMY--KTPFVVAANKIDRIPGWRSHEG  142 (590)
T ss_pred             cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHH-H----HHHHc--CCCEEEEEECCCccchhhhccC
Confidence            38899999999999999899999999999999997   5565554 2    22222  6899999999999643210000


Q ss_pred             CC-------CCccccH-------HHHHHHHH-------------HhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          114 HP-------GAVPITT-------AQGEELRK-------------LIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       114 ~~-------~~~~~~~-------~~~~~~~~-------------~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .+       ....+..       ....++.+             ..+..+++.+||++|.|+++++.++...
T Consensus       143 ~~f~e~sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l  214 (590)
T TIGR00491       143 RPFMESFSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGL  214 (590)
T ss_pred             chHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHH
Confidence            00       0000000       00011111             1223478999999999999999987653

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.

>cd04163 Era Era subfamily

Probab=99.46  E-value=7.5e-13  Score=92.87  Aligned_cols=112  Identities=19%  Similarity=0.213  Sum_probs=77.9

Q ss_pred             CeEEEEEEEeCCCCccccc--------cCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           33 GSTVNLGLWDTAGQEDYNR--------LRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      ...+.+.+|||+|......        .....+..+|++++|+|++++.+...  ..+...+...  +.|+++|+||+|+
T Consensus        48 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~--~~~~~~~~~~--~~~~iiv~nK~Dl  123 (168)
T cd04163          48 DDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGD--EFILELLKKS--KTPVILVLNKIDL  123 (168)
T ss_pred             cCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchH--HHHHHHHHHh--CCCEEEEEEchhc
Confidence            3347899999999764332        22345788999999999998832221  2344444433  5899999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .....          ...+....+....+..+++++|++++.|+++++++|.+.
T Consensus       124 ~~~~~----------~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         124 VKDKE----------DLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             cccHH----------HHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence            64221          223344445555544589999999999999999998764

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.

>cd00880 Era_like Era (E

Probab=99.45  E-value=1.3e-12  Score=90.67  Aligned_cols=111  Identities=23%  Similarity=0.241  Sum_probs=79.2

Q ss_pred             EEEEEEEeCCCCccccccCc-------ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRP-------LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~-------~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ...+.+|||+|...+.....       .+++.+|++++|+|.+++.+.... . |......  .+.|+++|+||.|+...
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~-~-~~~~~~~--~~~~~ivv~nK~D~~~~  119 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEE-K-LLELLRE--RGKPVLLVLNKIDLLPE  119 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-H-HHHHHHh--cCCeEEEEEEccccCCh
Confidence            46799999999877654433       378899999999999999877765 2 3333333  37999999999999754


Q ss_pred             cccccCCCCCccccHHH--HHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          108 KQFFIDHPGAVPITTAQ--GEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ..          .....  ...........+++++||+++.|+.++++++.+.+
T Consensus       120 ~~----------~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~~  163 (163)
T cd00880         120 EE----------EEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEAL  163 (163)
T ss_pred             hh----------HHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhhC
Confidence            32          11110  11122223334899999999999999999998753

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

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

Probab=99.45  E-value=2.7e-13  Score=109.81  Aligned_cols=114  Identities=14%  Similarity=0.075  Sum_probs=75.6

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA-KKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~-~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      ....+.+.||||||+++|.......++++|++++|+|+++.+++.... ..+.... ......|+++++||+|+..... 
T Consensus        81 ~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~-~~~~~~~iIVviNK~Dl~~~~~-  158 (426)
T TIGR00483        81 ETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLA-RTLGINQLIVAINKMDSVNYDE-  158 (426)
T ss_pred             ccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHH-HHcCCCeEEEEEEChhccCccH-
Confidence            334478999999999988765556788999999999999885432110 1111122 2223457999999999964211 


Q ss_pred             ccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHHH
Q 030337          111 FIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~f  152 (179)
                           ........+...+++..+.    .+++++||++|.|+.+.+
T Consensus       159 -----~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       159 -----EEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             -----HHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence                 0001223455667776653    479999999999998744

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.

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

Probab=99.44  E-value=6.7e-14  Score=113.15  Aligned_cols=152  Identities=24%  Similarity=0.302  Sum_probs=115.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      ||+-..+++.|.++ .|...+.+.....+.-+.+...|.||+..+.-+......++.||++.++|+.+++++.+.+...|
T Consensus        24 SLImSL~~eef~~~-VP~rl~~i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~W  102 (625)
T KOG1707|consen   24 SLIMSLLEEEFVDA-VPRRLPRILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKW  102 (625)
T ss_pred             HHHHHHHhhhcccc-ccccCCccccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhh
Confidence            57778888999777 44444444433333334466899999877665555567899999999999999999999999999


Q ss_pred             HHHHhhcC---CCCcEEEEEeCCCcccccccccCCCCCccccHHH-HHHHHHHh-CCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHYA---PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ-GEELRKLI-GSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~---~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ++.+++..   .++||||||||.|......          -+.+. ..-+..++ .+...++|||++..++.++|....+
T Consensus       103 LPlir~~~~~~~~~PVILvGNK~d~~~~~~----------~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqK  172 (625)
T KOG1707|consen  103 LPLIRQLFGDYHETPVILVGNKSDNGDNEN----------NSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQK  172 (625)
T ss_pred             hhhhhcccCCCccCCEEEEeeccCCccccc----------cchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhh
Confidence            99999988   5899999999999986553          22222 33333332 3345789999999999999999999


Q ss_pred             HHhCCchh
Q 030337          158 VVLQPPKQ  165 (179)
Q Consensus       158 ~i~~~~~~  165 (179)
                      .++.+..+
T Consensus       173 aVihPt~P  180 (625)
T KOG1707|consen  173 AVIHPTSP  180 (625)
T ss_pred             eeeccCcc
Confidence            99887655

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.44  E-value=1.9e-12  Score=91.02  Aligned_cols=107  Identities=21%  Similarity=0.258  Sum_probs=88.1

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.++|||||+||..+|+.+++++.++|+++|.+.+..+..  ...+..+.... .+|++|..||.|+.+.        
T Consensus        68 ~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~~a--~~ii~f~~~~~-~ip~vVa~NK~DL~~a--------  136 (187)
T COG2229          68 TGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHA--EEIIDFLTSRN-PIPVVVAINKQDLFDA--------  136 (187)
T ss_pred             ceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcchHH--HHHHHHHhhcc-CCCEEEEeeccccCCC--------
Confidence            578999999999999999999999999999999999999943  45555555442 2999999999999874        


Q ss_pred             CCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                          .+.++..++.+.-  +. +.++++|.++.+..+.++.+...
T Consensus       137 ----~ppe~i~e~l~~~~~~~-~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         137 ----LPPEKIREALKLELLSV-PVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             ----CCHHHHHHHHHhccCCC-ceeeeecccchhHHHHHHHHHhh
Confidence                3455666655544  55 89999999999999999888776

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

Probab=99.43  E-value=3.9e-13  Score=96.55  Aligned_cols=132  Identities=15%  Similarity=0.099  Sum_probs=83.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeE-EEECCeEEEEEEEeCCCCc----------cccccCccccc---CccEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSAN-VVVDGSTVNLGLWDTAGQE----------DYNRLRPLSYR---GADVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~-~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~~---~~~~~i~v~d   68 (179)
                      +|+.++..+.|...+.++.|...... ...++   .+.+|||||..          .+..+...+++   .++++++|+|
T Consensus        33 tlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd  109 (179)
T TIGR03598        33 SLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMD  109 (179)
T ss_pred             HHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEec
Confidence            46777887777666667766433211 22233   58999999953          22223334454   4679999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC-CeEEEeccCCCCc
Q 030337           69 LISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-PAYIECSSKTQQN  147 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~  147 (179)
                      ++++.+..+.  .++..+...  +.|+++|+||+|+.....        .....++.+..++..+. ..++++||++|.|
T Consensus       110 ~~~~~~~~~~--~~~~~~~~~--~~pviiv~nK~D~~~~~~--------~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~g  177 (179)
T TIGR03598       110 IRHPLKELDL--EMLEWLRER--GIPVLIVLTKADKLKKSE--------LNKQLKKIKKALKKDADDPSVQLFSSLKKTG  177 (179)
T ss_pred             CCCCCCHHHH--HHHHHHHHc--CCCEEEEEECcccCCHHH--------HHHHHHHHHHHHhhccCCCceEEEECCCCCC
Confidence            9987666554  334444433  689999999999964321        11233444455555432 2799999999999


Q ss_pred             HH
Q 030337          148 VK  149 (179)
Q Consensus       148 i~  149 (179)
                      ++
T Consensus       178 i~  179 (179)
T TIGR03598       178 ID  179 (179)
T ss_pred             CC
Confidence            73

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.42  E-value=3.4e-12  Score=104.00  Aligned_cols=113  Identities=16%  Similarity=0.171  Sum_probs=76.4

Q ss_pred             EEEEEEeCCCCccc----ccc---CcccccCccEEEEEEeCCCh----hhHHHHHHHHHHHHhhcC------------CC
Q 030337           36 VNLGLWDTAGQEDY----NRL---RPLSYRGADVFILAFSLISK----ASYENVAKKWIPELRHYA------------PG   92 (179)
Q Consensus        36 ~~~~i~D~~G~~~~----~~~---~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~i~~~~------------~~   92 (179)
                      ..+.+|||||....    ..+   ...++++++++|+|+|+++.    +.++++ ..|...+..+.            .+
T Consensus       206 ~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~-~~i~~EL~~y~~~l~~~~~~~~l~~  284 (500)
T PRK12296        206 TRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDI-DALEAELAAYAPALDGDLGLGDLAE  284 (500)
T ss_pred             eEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhH-HHHHHHHHHhhhcccccchhhhhcC
Confidence            67999999995321    111   12246789999999999863    344444 44444443332            36


Q ss_pred             CcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           93 VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        93 ~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      .|++||+||+|+.+...          . .+.........++ +++++||+++.|+++++++|.+.+..
T Consensus       285 kP~IVVlNKiDL~da~e----------l-~e~l~~~l~~~g~-~Vf~ISA~tgeGLdEL~~~L~ell~~  341 (500)
T PRK12296        285 RPRLVVLNKIDVPDARE----------L-AEFVRPELEARGW-PVFEVSAASREGLRELSFALAELVEE  341 (500)
T ss_pred             CCEEEEEECccchhhHH----------H-HHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            89999999999964321          1 1222233344565 89999999999999999999987754

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.42  E-value=3.1e-12  Score=103.88  Aligned_cols=142  Identities=18%  Similarity=0.140  Sum_probs=88.4

Q ss_pred             eehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCcccccc-----------CcccccCccEEEEEEeCC
Q 030337            4 IYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRL-----------RPLSYRGADVFILAFSLI   70 (179)
Q Consensus         4 l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~~~~~~~~~~~i~v~d~~   70 (179)
                      |+.+++...  ......+|..+.....+..++  ..+.+|||||..+....           ...+++.+|++|+|+|++
T Consensus       189 lin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~  266 (435)
T PRK00093        189 LINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDAT  266 (435)
T ss_pred             HHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCC
Confidence            445555432  223333344444444455566  45789999996443221           123578999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           71 SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        71 ~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      ++.+.++.  .+...+...  ..|+++|+||+|+.....        .....+.........+..+++++||++|.|+++
T Consensus       267 ~~~~~~~~--~i~~~~~~~--~~~~ivv~NK~Dl~~~~~--------~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~  334 (435)
T PRK00093        267 EGITEQDL--RIAGLALEA--GRALVIVVNKWDLVDEKT--------MEEFKKELRRRLPFLDYAPIVFISALTGQGVDK  334 (435)
T ss_pred             CCCCHHHH--HHHHHHHHc--CCcEEEEEECccCCCHHH--------HHHHHHHHHHhcccccCCCEEEEeCCCCCCHHH
Confidence            99888775  344444443  689999999999963221        000111111111222334899999999999999


Q ss_pred             HHHHHHHHH
Q 030337          151 VFDAAIKVV  159 (179)
Q Consensus       151 ~f~~l~~~i  159 (179)
                      +|+.+.+..
T Consensus       335 l~~~i~~~~  343 (435)
T PRK00093        335 LLEAIDEAY  343 (435)
T ss_pred             HHHHHHHHH
Confidence            999987754

>PRK10218 GTP-binding protein; Provisional

Probab=99.41  E-value=2.2e-12  Score=107.88  Aligned_cols=129  Identities=15%  Similarity=0.111  Sum_probs=89.0

Q ss_pred             ceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEE
Q 030337           20 TVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILV   98 (179)
Q Consensus        20 t~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv   98 (179)
                      +.|..+. +...+..+.+.+++|||||+.+|...+..+++.+|++|+|+|+++....+.. ..| ..+...  ++|++++
T Consensus        51 erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~-~~l-~~a~~~--gip~IVv  126 (607)
T PRK10218         51 ERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTR-FVT-KKAFAY--GLKPIVV  126 (607)
T ss_pred             cCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHH-HHH-HHHHHc--CCCEEEE
Confidence            3443332 4455555668999999999999999999999999999999999986544432 233 333333  6899999


Q ss_pred             EeCCCcccccccccCCCCCccccHHHHHHHHHH-------hCCCeEEEeccCCCC----------cHHHHHHHHHHHHhC
Q 030337           99 GTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-------IGSPAYIECSSKTQQ----------NVKAVFDAAIKVVLQ  161 (179)
Q Consensus        99 ~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~e~Sa~~~~----------~i~~~f~~l~~~i~~  161 (179)
                      .||+|+.....         ....++...+...       ..+ +++.+||++|.          ++..+|+.+++.+-.
T Consensus       127 iNKiD~~~a~~---------~~vl~ei~~l~~~l~~~~~~~~~-PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~  196 (607)
T PRK10218        127 INKVDRPGARP---------DWVVDQVFDLFVNLDATDEQLDF-PIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPA  196 (607)
T ss_pred             EECcCCCCCch---------hHHHHHHHHHHhccCccccccCC-CEEEeEhhcCcccCCccccccchHHHHHHHHHhCCC
Confidence            99999965331         1112333333322       223 68999999998          588888888887754


Q ss_pred             C
Q 030337          162 P  162 (179)
Q Consensus       162 ~  162 (179)
                      +
T Consensus       197 P  197 (607)
T PRK10218        197 P  197 (607)
T ss_pred             C
Confidence            3

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.41  E-value=1.7e-12  Score=94.02  Aligned_cols=114  Identities=25%  Similarity=0.330  Sum_probs=82.2

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccccc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI  112 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~  112 (179)
                      .....+.++||||+..|.......++.+|++|+|+|+.+....+..  ..+..+...  ++|+++|.||+|+....-   
T Consensus        67 ~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~--~~l~~~~~~--~~p~ivvlNK~D~~~~~~---  139 (188)
T PF00009_consen   67 ENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTE--EHLKILREL--GIPIIVVLNKMDLIEKEL---  139 (188)
T ss_dssp             ESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHH--HHHHHHHHT--T-SEEEEEETCTSSHHHH---
T ss_pred             ccccceeecccccccceeecccceecccccceeeeecccccccccc--ccccccccc--ccceEEeeeeccchhhhH---
Confidence            3447899999999999888777779999999999999977655443  333444444  688999999999973221   


Q ss_pred             CCCCCccccHHHHH-HHHHHhCC-----CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          113 DHPGAVPITTAQGE-ELRKLIGS-----PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       113 ~~~~~~~~~~~~~~-~~~~~~~~-----~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                            ....++.. .+.+..+.     .+++.+||++|.|++++++.+.+.+
T Consensus       140 ------~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  140 ------EEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             ------HHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             ------HHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence                  01112222 44444432     3699999999999999999998764

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 ....

>cd00066 G-alpha G protein alpha subunit

Probab=99.40  E-value=1.9e-12  Score=100.96  Aligned_cols=153  Identities=18%  Similarity=0.168  Sum_probs=101.6

Q ss_pred             hCCCCCcccCceeeceeeEEE--------ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---------
Q 030337           10 YSLGKQDYVPTVFDNFSANVV--------VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---------   72 (179)
Q Consensus        10 ~~~f~~~~~pt~~~~~~~~~~--------~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---------   72 (179)
                      ...+.++|.||..|.+..++.        +....+.+.+||+||+...+..|..++.+++++|+|+|+++.         
T Consensus       127 ~ri~~~~y~Pt~~Dil~~r~~T~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~  206 (317)
T cd00066         127 DRISDPDYIPTEQDILRARVKTTGIVETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDES  206 (317)
T ss_pred             HHHhCCCCCCChhHheeeecccCCeeEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCc
Confidence            446678899998765543322        122347899999999999999999999999999999999974         


Q ss_pred             -hhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc-----cCCCCCc-cccHHHHHHHHHH-----h----CCC
Q 030337           73 -ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF-----IDHPGAV-PITTAQGEELRKL-----I----GSP  135 (179)
Q Consensus        73 -~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~-----~~~~~~~-~~~~~~~~~~~~~-----~----~~~  135 (179)
                       ..+++....|-..+.... .++|++|++||.|+..+.-..     ......- +-+.+.+..+...     .    ...
T Consensus       207 ~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~  286 (317)
T cd00066         207 TNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEI  286 (317)
T ss_pred             chHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeE
Confidence             455555344443343333 589999999999986533211     1001110 1233444443322     1    112


Q ss_pred             eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          136 AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       136 ~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ....++|.+..++..+|+.+.+.|+..
T Consensus       287 ~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         287 YPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             EEEeccccchHHHHHHHHHHHHHHHHH
Confidence            345689999999999999999887753

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.39  E-value=2.7e-12  Score=107.71  Aligned_cols=140  Identities=16%  Similarity=0.139  Sum_probs=90.8

Q ss_pred             eehhhh---hCCCCCcc--cCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---hhH
Q 030337            4 IYIICN---YSLGKQDY--VPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---ASY   75 (179)
Q Consensus         4 l~~~~~---~~~f~~~~--~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---~s~   75 (179)
                      |+.++.   .+++.++.  ..|+...|......++  ..+.+|||||+++|.......+.++|++++|+|+++.   .+.
T Consensus        16 Li~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g--~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~   93 (614)
T PRK10512         16 LLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG--RVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTR   93 (614)
T ss_pred             HHHHHhCCCCccchhcccCCceEEeeeEEEecCCC--cEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHH
Confidence            455555   25565443  5565443332222234  3489999999999877666778999999999999974   344


Q ss_pred             HHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHHHHH
Q 030337           76 ENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        76 ~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~~~f  152 (179)
                      +.+     ..+...  ++| +++|+||+|+.++..        .....++...+.+..+.  .+++++||++|.|+++++
T Consensus        94 ehl-----~il~~l--gi~~iIVVlNKiDlv~~~~--------~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~  158 (614)
T PRK10512         94 EHL-----AILQLT--GNPMLTVALTKADRVDEAR--------IAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALR  158 (614)
T ss_pred             HHH-----HHHHHc--CCCeEEEEEECCccCCHHH--------HHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHH
Confidence            443     222222  345 679999999965321        00112344455554442  479999999999999999


Q ss_pred             HHHHHHHh
Q 030337          153 DAAIKVVL  160 (179)
Q Consensus       153 ~~l~~~i~  160 (179)
                      +.|.....
T Consensus       159 ~~L~~~~~  166 (614)
T PRK10512        159 EHLLQLPE  166 (614)
T ss_pred             HHHHHhhc
Confidence            99987543

>PRK00089 era GTPase Era; Reviewed

Probab=99.39  E-value=3.4e-12  Score=98.53  Aligned_cols=112  Identities=22%  Similarity=0.260  Sum_probs=79.3

Q ss_pred             EEEEEEeCCCCcccc--------ccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           36 VNLGLWDTAGQEDYN--------RLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~--------~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ..+.+|||||.....        ......+.++|++++|+|++++.+-..  ..+...+..  .+.|+++|+||+|+...
T Consensus        53 ~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~--~~i~~~l~~--~~~pvilVlNKiDl~~~  128 (292)
T PRK00089         53 AQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGD--EFILEKLKK--VKTPVILVLNKIDLVKD  128 (292)
T ss_pred             ceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhH--HHHHHHHhh--cCCCEEEEEECCcCCCC
Confidence            789999999975422        122335789999999999998432221  233444442  26899999999999632


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ..          ........+.+..+...++.+||+++.|++++++++.+.+..
T Consensus       129 ~~----------~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~~  172 (292)
T PRK00089        129 KE----------ELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLPE  172 (292)
T ss_pred             HH----------HHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCCC
Confidence            21          233455556665665689999999999999999999998754

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.38  E-value=2.2e-11  Score=91.13  Aligned_cols=111  Identities=18%  Similarity=0.217  Sum_probs=75.0

Q ss_pred             EEEECCeEEEEEEEeCCCCccccc-------cCcccccCccEEEEEEeCCChh-hHHHHHHHHHH---------------
Q 030337           28 NVVVDGSTVNLGLWDTAGQEDYNR-------LRPLSYRGADVFILAFSLISKA-SYENVAKKWIP---------------   84 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~---------------   84 (179)
                      .+.+++  ..+++|||||......       ....++++++++++|+|++++. ..+.+ ...++               
T Consensus        41 ~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~~~~~~~~-~~~l~~~gi~l~~~~~~v~~  117 (233)
T cd01896          41 VLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKPEGHREIL-ERELEGVGIRLNKRPPNITI  117 (233)
T ss_pred             EEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcchhHHHHH-HHHHHHcCceecCCCCeEEE
Confidence            344555  6799999999754331       1234789999999999999876 33322 12211               


Q ss_pred             --------------------------HHhhc-------------------------CCCCcEEEEEeCCCcccccccccC
Q 030337           85 --------------------------ELRHY-------------------------APGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        85 --------------------------~i~~~-------------------------~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                                                .++++                         ....|+++|+||+|+.        
T Consensus       118 ~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~--------  189 (233)
T cd01896         118 KKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDITVDDLIDVIEGNRVYIPCLYVYNKIDLI--------  189 (233)
T ss_pred             EEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHHHHHHHHhCCceEeeEEEEEECccCC--------
Confidence                                      00011                         1136999999999984        


Q ss_pred             CCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          114 HPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                             +.+++..++..   ..++++||++|.|++++|+.+.+.+
T Consensus       190 -------~~~~~~~~~~~---~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         190 -------SIEELDLLARQ---PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             -------CHHHHHHHhcC---CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                   33444455443   3689999999999999999998865

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.37  E-value=2.6e-12  Score=107.40  Aligned_cols=118  Identities=16%  Similarity=0.172  Sum_probs=85.1

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      +..+.++++||||||+.+|...+..+++.+|++++|+|+++...-+ . ..|+..+...  ++|+++|+||+|+...+. 
T Consensus        59 v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~~~q-T-~~~l~~a~~~--~ip~IVviNKiD~~~a~~-  133 (594)
T TIGR01394        59 IRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQ-T-RFVLKKALEL--GLKPIVVINKIDRPSARP-  133 (594)
T ss_pred             EEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHH-H-HHHHHHHHHC--CCCEEEEEECCCCCCcCH-
Confidence            3334588999999999999988888999999999999998754322 2 3444455444  689999999999965321 


Q ss_pred             ccCCCCCccccHHHHHHHHHH-------hCCCeEEEeccCCCC----------cHHHHHHHHHHHHhCC
Q 030337          111 FIDHPGAVPITTAQGEELRKL-------IGSPAYIECSSKTQQ----------NVKAVFDAAIKVVLQP  162 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~e~Sa~~~~----------~i~~~f~~l~~~i~~~  162 (179)
                              ....++...+...       ..+ +++.+||++|.          |+..+|+.+++.+-.+
T Consensus       134 --------~~v~~ei~~l~~~~g~~~e~l~~-pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       134 --------DEVVDEVFDLFAELGADDEQLDF-PIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             --------HHHHHHHHHHHHhhccccccccC-cEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence                    0112333343322       234 68999999996          7999999999877544

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.

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.33  E-value=2.5e-11  Score=97.97  Aligned_cols=117  Identities=27%  Similarity=0.297  Sum_probs=90.1

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ++..+.+++.|||||-+|......-+.-|+|+++|+|+.....-+-+ ..++..+..   +..+|.|.||+|++..+.  
T Consensus       121 ~~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~-anf~lAfe~---~L~iIpVlNKIDlp~adp--  194 (650)
T KOG0462|consen  121 DGQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTV-ANFYLAFEA---GLAIIPVLNKIDLPSADP--  194 (650)
T ss_pred             cCCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHH-HHHHHHHHc---CCeEEEeeeccCCCCCCH--
Confidence            46779999999999999999988899999999999999998877776 444445543   688999999999987431  


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                             ..-..+..++...... +.+.+||++|.|++++++.+++.+--+
T Consensus       195 -------e~V~~q~~~lF~~~~~-~~i~vSAK~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  195 -------ERVENQLFELFDIPPA-EVIYVSAKTGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             -------HHHHHHHHHHhcCCcc-ceEEEEeccCccHHHHHHHHHhhCCCC
Confidence                   0111222333333333 688999999999999999999987543

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.31  E-value=7.7e-12  Score=101.32  Aligned_cols=114  Identities=15%  Similarity=0.122  Sum_probs=73.0

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ....+.+.+|||||+++|.......++.+|++++|+|++++.++......+...+... ...|+++++||+|+.....  
T Consensus        80 ~~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~~~~--  156 (425)
T PRK12317         80 ETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVNYDE--  156 (425)
T ss_pred             ecCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccccccH--
Confidence            3345789999999999886654556789999999999997322211101222222222 2346999999999964210  


Q ss_pred             cCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHHH
Q 030337          112 IDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~f  152 (179)
                          .......++...+++..+.    .+++.+||++|.|+.+.+
T Consensus       157 ----~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        157 ----KRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             ----HHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence                0001123455556665553    369999999999998744

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.30  E-value=8.4e-12  Score=100.47  Aligned_cols=111  Identities=18%  Similarity=0.143  Sum_probs=78.2

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh----hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA----SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~----s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      ...+.+|||||+++|...+......+|++++|+|+++..    +.+.+     ..+... .-.|+++++||+|+.+... 
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l-----~~l~~~-gi~~iIVvvNK~Dl~~~~~-  151 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHL-----MALEII-GIKNIVIVQNKIDLVSKEK-  151 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHH-----HHHHHc-CCCeEEEEEEccccCCHHH-
Confidence            467999999999999887777788899999999999643    33333     222222 2357999999999965321 


Q ss_pred             ccCCCCCccccHHHHHHHHHHh---CCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          111 FIDHPGAVPITTAQGEELRKLI---GSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                             .....++...+.+..   +. +++++||++|.|+++++++|...+-
T Consensus       152 -------~~~~~~~i~~~l~~~~~~~~-~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       152 -------ALENYEEIKEFVKGTVAENA-PIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             -------HHHHHHHHHhhhhhcccCCC-eEEEEECCCCCChHHHHHHHHHhCC
Confidence                   001123333444332   34 7999999999999999999998664

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

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

Probab=99.29  E-value=1.4e-11  Score=99.34  Aligned_cols=112  Identities=19%  Similarity=0.130  Sum_probs=75.3

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh----hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA----SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~----s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ..+.+|||||++.|..........+|++++|+|++++.    +.+.+     ..+... ...|+++|+||+|+.+...  
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l-----~~l~~~-~i~~iiVVlNK~Dl~~~~~--  156 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHL-----MALDII-GIKNIVIVQNKIDLVSKER--  156 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHH-----HHHHHc-CCCcEEEEEEeeccccchh--
Confidence            68999999999988664444556789999999999653    33332     122222 2347999999999965321  


Q ss_pred             cCCCCCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          112 IDHPGAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                            .....++...+++..  ...+++++||++|.|++++++.|...+..
T Consensus       157 ------~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        157 ------ALENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             ------HHHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence                  001123334444332  12379999999999999999999887643

>PRK00098 GTPase RsgA; Reviewed

Probab=99.29  E-value=5e-11  Score=92.26  Aligned_cols=130  Identities=18%  Similarity=0.155  Sum_probs=84.5

Q ss_pred             hhCCCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcc-------cccCccEEEEEEeCCChhhHHHHHH
Q 030337            9 NYSLGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPL-------SYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         9 ~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-------~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      ..|.|. ....|.+||.+.....-++..+...+.+     +...+++.       ...++|++++|+|+++|.++.....
T Consensus        27 ~~g~~~~~~~~~~vGD~V~~~~~~~~~g~i~~i~~-----R~~~l~R~~~~~~q~iaaniD~vllV~d~~~p~~~~~~id  101 (298)
T PRK00098         27 ARGKFRKKTNTPAVGDRVEFSAENNDEGVILEIHE-----RKNLLVRPPIFKSKLIAANVDQAVLVFAAKEPDFSTDLLD  101 (298)
T ss_pred             eccccccCCCCcCCCCEEEEEECCCCcEEEEEEeC-----CCceEECCCCccccceeecCCEEEEEEECCCCCCCHHHHH
Confidence            344443 2344677776654432223333333443     22223333       3589999999999999876665557


Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           81 KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        81 ~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .|+..+...  ++|+++|+||+|+.++.           ..........+..+. +++.+||+++.|++++++.+..
T Consensus       102 r~L~~~~~~--~ip~iIVlNK~DL~~~~-----------~~~~~~~~~~~~~g~-~v~~vSA~~g~gi~~L~~~l~g  164 (298)
T PRK00098        102 RFLVLAEAN--GIKPIIVLNKIDLLDDL-----------EEARELLALYRAIGY-DVLELSAKEGEGLDELKPLLAG  164 (298)
T ss_pred             HHHHHHHHC--CCCEEEEEEhHHcCCCH-----------HHHHHHHHHHHHCCC-eEEEEeCCCCccHHHHHhhccC
Confidence            887776543  78999999999995322           122233444556676 8999999999999999987754

>smart00275 G_alpha G protein alpha subunit

Probab=99.29  E-value=5.8e-11  Score=93.43  Aligned_cols=149  Identities=20%  Similarity=0.215  Sum_probs=96.4

Q ss_pred             CCCCcccCceeece----------eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---------
Q 030337           12 LGKQDYVPTVFDNF----------SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---------   72 (179)
Q Consensus        12 ~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---------   72 (179)
                      .+.++|.||..|.+          ...+.+++  +.+.+||+||+...+..|..++.+++++|||+|+++.         
T Consensus       152 i~~~~y~Pt~~Dil~~r~~T~Gi~~~~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~  229 (342)
T smart00275      152 IGDPDYVPTEQDILRSRVPTTGIQETAFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDES  229 (342)
T ss_pred             HhCCCCCCCHHHhhheeCCccceEEEEEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCc
Confidence            45577777754322          12333444  7789999999999999999999999999999999973         


Q ss_pred             -hhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc-c----CCCCCccccHHHHHHHHHH-----hC-----CC
Q 030337           73 -ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF-I----DHPGAVPITTAQGEELRKL-----IG-----SP  135 (179)
Q Consensus        73 -~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~-----~~-----~~  135 (179)
                       ..+++....|-..+.... .++|++|++||.|+..+.-.. +    .....-..+.+.+..+...     ..     ..
T Consensus       230 ~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~  309 (342)
T smart00275      230 TNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSI  309 (342)
T ss_pred             chHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceE
Confidence             355555333333333322 589999999999996532111 0    0000000233334333222     11     12


Q ss_pred             eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          136 AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       136 ~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..+.+||.+..++..+|+.+.+.+++.
T Consensus       310 y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      310 YHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             EEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            346788999999999999988887754

Subunit of G proteins that contains the guanine nucleotide binding site

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.27  E-value=2.7e-11  Score=85.14  Aligned_cols=140  Identities=16%  Similarity=0.087  Sum_probs=87.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCcc----------ccccCccccc---CccEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQED----------YNRLRPLSYR---GADVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~~~---~~~~~i~v~d   68 (179)
                      +|+.++.++.+.+...++.+.... ..+..++   .+.+|||+|...          +......++.   +++++++++|
T Consensus        14 tL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d   90 (170)
T cd01876          14 SLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLID   90 (170)
T ss_pred             HHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEE
Confidence            467777777887777777764333 2222333   799999999432          3333334443   4678999999


Q ss_pred             CCChhhHHHH-HHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-HhCCCeEEEeccCCCC
Q 030337           69 LISKASYENV-AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-LIGSPAYIECSSKTQQ  146 (179)
Q Consensus        69 ~~~~~s~~~~-~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~Sa~~~~  146 (179)
                      .+++.+.... ...|+..   .  ..|+++|+||+|+.....        ............+ .....+++++||+++.
T Consensus        91 ~~~~~~~~~~~~~~~l~~---~--~~~vi~v~nK~D~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~  157 (170)
T cd01876          91 SRHGPTEIDLEMLDWLEE---L--GIPFLVVLTKADKLKKSE--------LAKALKEIKKELKLFEIDPPIILFSSLKGQ  157 (170)
T ss_pred             cCcCCCHhHHHHHHHHHH---c--CCCEEEEEEchhcCChHH--------HHHHHHHHHHHHHhccCCCceEEEecCCCC
Confidence            9876433221 1334332   2  589999999999953221        0111122222232 2333478999999999


Q ss_pred             cHHHHHHHHHHH
Q 030337          147 NVKAVFDAAIKV  158 (179)
Q Consensus       147 ~i~~~f~~l~~~  158 (179)
                      ++.++++++.+.
T Consensus       158 ~~~~l~~~l~~~  169 (170)
T cd01876         158 GIDELRALIEKW  169 (170)
T ss_pred             CHHHHHHHHHHh
Confidence            999999999875

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.27  E-value=3.2e-11  Score=100.89  Aligned_cols=113  Identities=20%  Similarity=0.210  Sum_probs=74.2

Q ss_pred             EEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           38 LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        38 ~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      +.+|||||++.|..++...++.+|++++|+|+++   +.+++.+ .    .+..  .++|+++++||+|+........+.
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i-~----~~~~--~~vpiIvviNK~D~~~~~~~~~~~  145 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAI-N----ILKR--RKTPFVVAANKIDRIPGWKSTEDA  145 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHH-H----HHHH--cCCCEEEEEECcCCchhhhhhcCc
Confidence            6899999999999888888899999999999998   6666655 2    2222  268999999999985322100000


Q ss_pred             CCCccc--cHH-----------HHHHHHHHh--------------CCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          115 PGAVPI--TTA-----------QGEELRKLI--------------GSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       115 ~~~~~~--~~~-----------~~~~~~~~~--------------~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +.....  ...           +........              +..+++.+||++|.|+.++++.+..
T Consensus       146 ~~~e~~~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        146 PFLESIEKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             hHHHHHhhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHH
Confidence            000000  000           000111111              2246899999999999999988764

>cd04167 Snu114p Snu114p subfamily

Probab=99.26  E-value=2.9e-11  Score=89.23  Aligned_cols=70  Identities=21%  Similarity=0.329  Sum_probs=56.8

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +++.+.+.+|||||++.|...+..++..+|++++|+|+++..++..  ..|+......  +.|+++|+||+|+.
T Consensus        67 ~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~--~~~~~~~~~~--~~p~iiviNK~D~~  136 (213)
T cd04167          67 KGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT--ERLIRHAILE--GLPIVLVINKIDRL  136 (213)
T ss_pred             CCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH--HHHHHHHHHc--CCCEEEEEECcccC
Confidence            3567899999999999998777888999999999999998776654  2444444332  58999999999985

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.25  E-value=1.3e-10  Score=99.81  Aligned_cols=136  Identities=14%  Similarity=0.080  Sum_probs=92.2

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCc----------cc--ccCccEEEEEEeCC
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRP----------LS--YRGADVFILAFSLI   70 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~----------~~--~~~~~~~i~v~d~~   70 (179)
                      |+.++.....  ...+..|..+. ++..+.....++++|||||..++.....          .+  ...+|++++|+|.+
T Consensus        19 LfN~Ltg~~~--~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat   96 (772)
T PRK09554         19 LFNQLTGARQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDAS   96 (772)
T ss_pred             HHHHHhCCCC--ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCC
Confidence            4455554433  12222343332 3333444557899999999987654221          23  24799999999999


Q ss_pred             ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           71 SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        71 ~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      +.+...    .|..++.+.  +.|+++++||+|+.+...          + ....+.+.+.+++ +++++||++|.|+++
T Consensus        97 ~ler~l----~l~~ql~e~--giPvIvVlNK~Dl~~~~~----------i-~id~~~L~~~LG~-pVvpiSA~~g~GIde  158 (772)
T PRK09554         97 NLERNL----YLTLQLLEL--GIPCIVALNMLDIAEKQN----------I-RIDIDALSARLGC-PVIPLVSTRGRGIEA  158 (772)
T ss_pred             cchhhH----HHHHHHHHc--CCCEEEEEEchhhhhccC----------c-HHHHHHHHHHhCC-CEEEEEeecCCCHHH
Confidence            865432    344444444  699999999999865332          3 3456778888998 899999999999999


Q ss_pred             HHHHHHHHH
Q 030337          151 VFDAAIKVV  159 (179)
Q Consensus       151 ~f~~l~~~i  159 (179)
                      +.+.+....
T Consensus       159 L~~~I~~~~  167 (772)
T PRK09554        159 LKLAIDRHQ  167 (772)
T ss_pred             HHHHHHHhh
Confidence            999887754

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.25  E-value=2.3e-11  Score=90.25  Aligned_cols=108  Identities=16%  Similarity=0.076  Sum_probs=67.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-------hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-------SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-------s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ...+.+|||||+..|...+...++.+|++|+|+|+++..       ..+.. ..| ..... ....|+++++||+|+...
T Consensus        76 ~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~-~~~-~~~~~-~~~~~iiivvNK~Dl~~~  152 (219)
T cd01883          76 KYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTR-EHA-LLART-LGVKQLIVAVNKMDDVTV  152 (219)
T ss_pred             CeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchH-HHH-HHHHH-cCCCeEEEEEEccccccc
Confidence            378999999999877766666778899999999999852       11221 222 22222 234689999999999731


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHH
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVK  149 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~  149 (179)
                      ..    .........++...+.+..+.    .+++.+||++|.|++
T Consensus       153 ~~----~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         153 NW----SEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             cc----cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            10    000000111233334455443    369999999999987

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.24  E-value=7.4e-11  Score=94.25  Aligned_cols=114  Identities=18%  Similarity=0.193  Sum_probs=81.8

Q ss_pred             EEEEEEeCCCCccccc----c---CcccccCccEEEEEEeCC---ChhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCC
Q 030337           36 VNLGLWDTAGQEDYNR----L---RPLSYRGADVFILAFSLI---SKASYENVAKKWIPELRHYA---PGVPIILVGTKL  102 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~----~---~~~~~~~~~~~i~v~d~~---~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~  102 (179)
                      ..+.++||||...-.+    +   ....++.++++++|+|++   +...++++ ..|...+..+.   .+.|+++|+||+
T Consensus       207 ~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~-~~l~~eL~~~~~~L~~kP~IlVlNKi  285 (390)
T PRK12298        207 RSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENA-RIIINELEKYSPKLAEKPRWLVFNKI  285 (390)
T ss_pred             cEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHH-HHHHHHHHhhhhhhcCCCEEEEEeCC
Confidence            3588999999743211    1   112478899999999998   45567766 67777777654   368999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCC-CeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-PAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+....           ...+....+.+..+. ..++.+||+++.|++++++.+.+.+..
T Consensus       286 Dl~~~~-----------el~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        286 DLLDEE-----------EAEERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEE  334 (390)
T ss_pred             ccCChH-----------HHHHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence            996432           122334445555443 268999999999999999999998754

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

Probab=99.22  E-value=1.5e-10  Score=92.23  Aligned_cols=116  Identities=23%  Similarity=0.304  Sum_probs=90.9

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      +|+.+.+++.|||||-+|......-+.-|.|+++|+|++..-.-+.+ ...+-.+..   +..++-|.||+|++..+   
T Consensus        72 ~g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTl-AN~YlAle~---~LeIiPViNKIDLP~Ad---  144 (603)
T COG0481          72 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTL-ANVYLALEN---NLEIIPVLNKIDLPAAD---  144 (603)
T ss_pred             CCCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHH-HHHHHHHHc---CcEEEEeeecccCCCCC---
Confidence            56889999999999999988888888999999999999998777766 334444443   68889999999998733   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          112 IDHPGAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                               ...-..+.....|+  ...+.+|||+|.||+++++.+++.+--+.
T Consensus       145 ---------pervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         145 ---------PERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             ---------HHHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCCCC
Confidence                     22333445555565  34688999999999999999999875443

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

Probab=99.21  E-value=2e-11  Score=84.41  Aligned_cols=140  Identities=15%  Similarity=0.216  Sum_probs=97.4

Q ss_pred             eehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI   83 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~   83 (179)
                      |++...+++- ..+.||.-. .+..+.++|  ++++.+|.+|+..-+..|..|+..++++++.+|+.|.+.|++.+.++-
T Consensus        36 LLHMLKdDrl-~qhvPTlHP-TSE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld  111 (193)
T KOG0077|consen   36 LLHMLKDDRL-GQHVPTLHP-TSEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELD  111 (193)
T ss_pred             HHHHHccccc-cccCCCcCC-ChHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHH
Confidence            3455555544 344566421 144566788  899999999999989999999999999999999999999998855553


Q ss_pred             HHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH---HHHH---hC--------C--CeEEEeccCCCC
Q 030337           84 PELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE---LRKL---IG--------S--PAYIECSSKTQQ  146 (179)
Q Consensus        84 ~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~---~~~~---~~--------~--~~~~e~Sa~~~~  146 (179)
                      ..+.... .++|++++|||+|.+...            +.++.+.   +.+.   .+        .  ...+.||+..+.
T Consensus       112 ~ll~~e~la~vp~lilgnKId~p~a~------------se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~  179 (193)
T KOG0077|consen  112 ALLSDESLATVPFLILGNKIDIPYAA------------SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKM  179 (193)
T ss_pred             HHHhHHHHhcCcceeecccccCCCcc------------cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccC
Confidence            3333332 589999999999997632            3222221   1111   11        1  235668888888


Q ss_pred             cHHHHHHHHHHHH
Q 030337          147 NVKAVFDAAIKVV  159 (179)
Q Consensus       147 ~i~~~f~~l~~~i  159 (179)
                      +.-+.|.|+...+
T Consensus       180 gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  180 GYGEGFKWLSQYI  192 (193)
T ss_pred             ccceeeeehhhhc
Confidence            8888888876643

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.21  E-value=1.3e-10  Score=101.77  Aligned_cols=114  Identities=24%  Similarity=0.291  Sum_probs=74.7

Q ss_pred             EEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           38 LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        38 ~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      +.+|||||++.|..+....+..+|++++|+|+++   +.+++.+     ..+...  ++|+++|+||+|+.+........
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I-----~~lk~~--~iPiIVViNKiDL~~~~~~~~~~  600 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAI-----NILRQY--KTPFVVAANKIDLIPGWNISEDE  600 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHH-----HHHHHc--CCCEEEEEECCCCccccccccch
Confidence            8999999999998887778899999999999997   4555544     223332  68999999999996533211000


Q ss_pred             CCCcccc------HHHHH----HH---HHH--------------hCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          115 PGAVPIT------TAQGE----EL---RKL--------------IGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       115 ~~~~~~~------~~~~~----~~---~~~--------------~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +....+.      ..+..    .+   ...              .+..+++.+||++|.||+++...+...
T Consensus       601 ~~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        601 PFLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHh
Confidence            0000000      00000    00   111              133478999999999999999877643

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.20  E-value=3.7e-11  Score=88.42  Aligned_cols=106  Identities=20%  Similarity=0.137  Sum_probs=69.0

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.+|||||+++|...+...++.+|++++|+|++++..-+..  .....+... ...++++|+||+|+.....      
T Consensus        77 ~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~--~~~~~~~~~-~~~~iIvviNK~D~~~~~~------  147 (208)
T cd04166          77 RKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTR--RHSYILSLL-GIRHVVVAVNKMDLVDYSE------  147 (208)
T ss_pred             ceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHH--HHHHHHHHc-CCCcEEEEEEchhcccCCH------
Confidence            5788999999988766556678999999999999976433222  111222222 2346888999999964211      


Q ss_pred             CCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHHH
Q 030337          116 GAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVKA  150 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~~  150 (179)
                      ........+...+.+.++.  .+++.+||++|.|+.+
T Consensus       148 ~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~  184 (208)
T cd04166         148 EVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVS  184 (208)
T ss_pred             HHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCcc
Confidence            0000112344555666664  2489999999999875

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.17  E-value=6.1e-10  Score=85.79  Aligned_cols=132  Identities=16%  Similarity=0.111  Sum_probs=85.7

Q ss_pred             hhCCCCC-cccCceeeceeeEEEECCeEEEEEEEeCCCCccccc----cCcccccCccEEEEEEeCCChh-hHHHHHHHH
Q 030337            9 NYSLGKQ-DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR----LRPLSYRGADVFILAFSLISKA-SYENVAKKW   82 (179)
Q Consensus         9 ~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~   82 (179)
                      ..+.|.. ...|.+||.+.....-++..+...|..--.. -.++    .....+.++|++++|+|+.++. ++..+ +.|
T Consensus        24 ~~g~~~~~~~~~~vGD~V~~~~~~~~~~~i~~i~~R~~~-l~R~~~~~~~~~i~anvD~vllV~d~~~p~~s~~~l-dr~  101 (287)
T cd01854          24 ARGKLRKKGIKPVVGDWVEVEPDDDGEGVIVRVLPRKNL-LSRPAAGGREQVIAANVDQLVIVVSLNEPFFNPRLL-DRY  101 (287)
T ss_pred             eccccccCCCCccCCCEEEEEecCCCcEEEEEEECCCce-EEccCCCCcceeEEEeCCEEEEEEEcCCCCCCHHHH-HHH
Confidence            3444431 2358888877644322333444455441110 0000    0223489999999999999998 88877 778


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +..+...  +.|+++|+||+|+.++.            ............+. +++.+||+++.|+++++..+..
T Consensus       102 L~~~~~~--~ip~iIVlNK~DL~~~~------------~~~~~~~~~~~~g~-~v~~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         102 LVAAEAA--GIEPVIVLTKADLLDDE------------EEELELVEALALGY-PVLAVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             HHHHHHc--CCCEEEEEEHHHCCChH------------HHHHHHHHHHhCCC-eEEEEECCCCccHHHHHhhhcc
Confidence            8776654  78999999999995421            11122333445676 8999999999999999988764

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.16  E-value=2.1e-10  Score=92.66  Aligned_cols=145  Identities=25%  Similarity=0.338  Sum_probs=115.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|++||++|.|+++..|. |..|.+++.+++....+.+.|.+|...     .+|...+|++||||.+.+..+|+.+ ..+
T Consensus        45 alvhr~ltgty~~~e~~e-~~~~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIfvf~~~d~~s~q~v-~~l  117 (749)
T KOG0705|consen   45 ALVHRYLTGTYTQDESPE-GGRFKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSFQAV-QAL  117 (749)
T ss_pred             eeeeeeccceeccccCCc-CccceeeEEeeccceEeeeecccCCch-----hhhhhhccceEEEEEeccccCHHHH-HHH
Confidence            689999999999998887 558888888999999999999999433     3677889999999999999999988 445


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+..+.  ..+|+++++++.-.....        .+.+....+..++..+....++++++.+|.++..+|+.+..+++
T Consensus       118 ~~~l~~~r~r~~i~l~lvgtqd~iS~~~--------~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i  189 (749)
T KOG0705|consen  118 AHEMSSYRNISDLPLILVGTQDHISAKR--------PRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIV  189 (749)
T ss_pred             HhhcccccccccchHHhhcCcchhhccc--------ccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHH
Confidence            44444443  479999999987664422        23455566666666655558999999999999999999988776


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ..
T Consensus       190 ~~  191 (749)
T KOG0705|consen  190 QL  191 (749)
T ss_pred             HH
Confidence            54

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.15  E-value=4.2e-10  Score=83.67  Aligned_cols=110  Identities=15%  Similarity=0.115  Sum_probs=72.3

Q ss_pred             EEEEEEeCCCCccccccCcccc--cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSY--RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      ..+.+.||||+++|.......+  ..+|++++|+|++....-+..  .++..+...  +.|+++|.||+|+.+...    
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~--~~l~~l~~~--~ip~ivvvNK~D~~~~~~----  155 (224)
T cd04165          84 KLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTK--EHLGLALAL--NIPVFVVVTKIDLAPANI----  155 (224)
T ss_pred             cEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCEEEEEECccccCHHH----
Confidence            5789999999998865433334  368999999999876544332  444444444  689999999999864321    


Q ss_pred             CCCCccccHHHHHHHHHH-------------------------hCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          114 HPGAVPITTAQGEELRKL-------------------------IGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~-------------------------~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                          ......+...+.+.                         ....+++.+||.+|.|++++...|..
T Consensus       156 ----~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         156 ----LQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             ----HHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence                00111122222221                         11347899999999999999877643

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.15  E-value=4.2e-11  Score=89.04  Aligned_cols=118  Identities=19%  Similarity=0.346  Sum_probs=77.0

Q ss_pred             EEEEEEEeCCCCcccccc-----CcccccCccEEEEEEeCCChhhHHHH--HHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           35 TVNLGLWDTAGQEDYNRL-----RPLSYRGADVFILAFSLISKASYENV--AKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~-----~~~~~~~~~~~i~v~d~~~~~s~~~~--~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      .+.++|||.||+..+...     ....+++++++|+|+|+.+.+-.+++  ....+..+.+..++..+-++.+|+|+..+
T Consensus        47 ~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~  126 (232)
T PF04670_consen   47 FLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSE  126 (232)
T ss_dssp             SCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-H
T ss_pred             CcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCH
Confidence            378999999999755432     35578999999999999955433333  14445666677789999999999999653


Q ss_pred             cccccCCCCCcccc----HHHHHHHHHHhC---CCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          108 KQFFIDHPGAVPIT----TAQGEELRKLIG---SPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       108 ~~~~~~~~~~~~~~----~~~~~~~~~~~~---~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..        +...    .+.....+...+   + .++.||.-+ +.+-++|-.+++.++-.
T Consensus       127 ~~--------r~~~~~~~~~~i~~~~~~~~~~~~-~~~~TSI~D-~Sly~A~S~Ivq~LiP~  178 (232)
T PF04670_consen  127 DE--------REEIFRDIQQRIRDELEDLGIEDI-TFFLTSIWD-ESLYEAWSKIVQKLIPN  178 (232)
T ss_dssp             HH--------HHHHHHHHHHHHHHHHHHTT-TSE-EEEEE-TTS-THHHHHHHHHHHTTSTT
T ss_pred             HH--------HHHHHHHHHHHHHHHhhhccccce-EEEeccCcC-cHHHHHHHHHHHHHccc
Confidence            32        1111    122233344454   4 678888776 69999999999988743

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=99.14  E-value=1.5e-10  Score=85.91  Aligned_cols=69  Identities=17%  Similarity=0.183  Sum_probs=56.2

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      ++.+.+++|||||++.|......+++.+|++++|+|+++..+.+.. ..| ......  ++|+++|+||+|+.
T Consensus        70 ~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~-~~l-~~~~~~--~~p~ilviNKiD~~  138 (222)
T cd01885          70 GNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTE-TVL-RQALKE--RVKPVLVINKIDRL  138 (222)
T ss_pred             CCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHH-HHH-HHHHHc--CCCEEEEEECCCcc
Confidence            4578999999999999998888899999999999999988776653 222 233222  58999999999986

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

>PRK12289 GTPase RsgA; Reviewed

Probab=99.13  E-value=1.3e-09  Score=85.99  Aligned_cols=95  Identities=18%  Similarity=0.195  Sum_probs=69.0

Q ss_pred             cccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH
Q 030337           48 DYNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE  126 (179)
Q Consensus        48 ~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  126 (179)
                      +-..+.+..+.++|++++|+|+.++. ++..+ ..|+..+..  .++|++||+||+|+....            ......
T Consensus        78 R~~~L~R~~~aNvD~vLlV~d~~~p~~~~~~L-dR~L~~a~~--~~ip~ILVlNK~DLv~~~------------~~~~~~  142 (352)
T PRK12289         78 RKTELDRPPVANADQILLVFALAEPPLDPWQL-SRFLVKAES--TGLEIVLCLNKADLVSPT------------EQQQWQ  142 (352)
T ss_pred             cccceechhhhcCCEEEEEEECCCCCCCHHHH-HHHHHHHHH--CCCCEEEEEEchhcCChH------------HHHHHH
Confidence            33445566799999999999999876 45455 677665533  379999999999995422            111222


Q ss_pred             HHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          127 ELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       127 ~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ...+.++. .++.+||+++.|++++++.+...
T Consensus       143 ~~~~~~g~-~v~~iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        143 DRLQQWGY-QPLFISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             HHHHhcCC-eEEEEEcCCCCCHHHHhhhhccc
Confidence            33346677 79999999999999999888754

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.12  E-value=8e-10  Score=89.34  Aligned_cols=107  Identities=18%  Similarity=0.290  Sum_probs=77.7

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      -.+.+.|||||+.|..++..-..=+|++|+|++++|.--.|..  +-++..+..  ++|+++..||+|+++.+       
T Consensus        55 ~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTi--EAI~hak~a--~vP~iVAiNKiDk~~~n-------  123 (509)
T COG0532          55 PGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTI--EAINHAKAA--GVPIVVAINKIDKPEAN-------  123 (509)
T ss_pred             ceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHH--HHHHHHHHC--CCCEEEEEecccCCCCC-------
Confidence            4688999999999999998888899999999999985433322  111222332  79999999999998633       


Q ss_pred             CCccccHHHHHHHHHHhCC--------CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLIGS--------PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~--------~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                            ......-...+|+        ..++.+||++|.|+.+++..++-+.
T Consensus       124 ------p~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~a  169 (509)
T COG0532         124 ------PDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLA  169 (509)
T ss_pred             ------HHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHHH
Confidence                  2222222222222        4689999999999999999876543

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.12  E-value=7.1e-10  Score=83.17  Aligned_cols=71  Identities=23%  Similarity=0.237  Sum_probs=57.5

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..+.+++.+|||||+.+|...+..+++.+|++++|+|.++....+.  ..+...+...  +.|+++++||+|+..
T Consensus        60 ~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~--~~~~~~~~~~--~~P~iivvNK~D~~~  130 (237)
T cd04168          60 QWEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQT--RILWRLLRKL--NIPTIIFVNKIDRAG  130 (237)
T ss_pred             EECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHH--HHHHHHHHHc--CCCEEEEEECccccC
Confidence            3344789999999999998888889999999999999998765443  3455555544  689999999999975

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.

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.11  E-value=1.2e-09  Score=76.46  Aligned_cols=109  Identities=19%  Similarity=0.245  Sum_probs=74.5

Q ss_pred             eEEEECCeEEEEEEEeCCCCcccccc------Ccccc--cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEE
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNRL------RPLSY--RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILV   98 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv   98 (179)
                      -.+.+++  ..+.+.|+||.-.+.+.      ...++  .+.|++|.|.|+++.+.--    .+..++.+.  +.|++++
T Consensus        40 g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l----~l~~ql~e~--g~P~vvv  111 (156)
T PF02421_consen   40 GIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNL----YLTLQLLEL--GIPVVVV  111 (156)
T ss_dssp             EEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHH----HHHHHHHHT--TSSEEEE
T ss_pred             EEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHH----HHHHHHHHc--CCCEEEE
Confidence            3455566  67999999996443322      22233  6899999999999765322    333444444  6999999


Q ss_pred             EeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           99 GTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        99 ~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .||+|......          +.. ....+.+.+|+ +.+.+||+++.|++++++.+
T Consensus       112 lN~~D~a~~~g----------~~i-d~~~Ls~~Lg~-pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  112 LNKMDEAERKG----------IEI-DAEKLSERLGV-PVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             EETHHHHHHTT----------EEE--HHHHHHHHTS--EEEEBTTTTBTHHHHHHHH
T ss_pred             EeCHHHHHHcC----------CEE-CHHHHHHHhCC-CEEEEEeCCCcCHHHHHhhC
Confidence            99999976543          332 36778888998 89999999999999998864

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 ....

>PRK12288 GTPase RsgA; Reviewed

Probab=99.10  E-value=2.1e-09  Score=84.71  Aligned_cols=89  Identities=17%  Similarity=0.240  Sum_probs=66.6

Q ss_pred             ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCe
Q 030337           57 YRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA  136 (179)
Q Consensus        57 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (179)
                      ..|+|.+++|++++...++..+ +.|+..+..  .++|++||+||+|+.....         ...........+..+. +
T Consensus       118 aANvD~vlIV~s~~p~~s~~~L-dr~L~~a~~--~~i~~VIVlNK~DL~~~~~---------~~~~~~~~~~y~~~g~-~  184 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNII-DRYLVACET--LGIEPLIVLNKIDLLDDEG---------RAFVNEQLDIYRNIGY-R  184 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHH-HHHHHHHHh--cCCCEEEEEECccCCCcHH---------HHHHHHHHHHHHhCCC-e
Confidence            4679999999999877899888 888765543  3689999999999964221         0111222333445676 8


Q ss_pred             EEEeccCCCCcHHHHHHHHHHH
Q 030337          137 YIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       137 ~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ++++||+++.|++++++.+...
T Consensus       185 v~~vSA~tg~GideL~~~L~~k  206 (347)
T PRK12288        185 VLMVSSHTGEGLEELEAALTGR  206 (347)
T ss_pred             EEEEeCCCCcCHHHHHHHHhhC
Confidence            9999999999999999998764

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.09  E-value=5.6e-10  Score=88.84  Aligned_cols=135  Identities=17%  Similarity=0.133  Sum_probs=95.2

Q ss_pred             eehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCcccc--c-------cCcccccCccEEEEEEeCCCh
Q 030337            4 IYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYN--R-------LRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         4 l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~-------~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      |+.|.+..+-  .+++.-+..|.......+.+..  +.+.||+|-+...  .       -....+..||+++||+|....
T Consensus        19 LFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~--f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~G   96 (444)
T COG1160          19 LFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--FILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREG   96 (444)
T ss_pred             HHHHHhCCeeeEeecCCCCccCCccceeEEcCce--EEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCC
Confidence            3444444433  3555556667777777788844  9999999977533  1       123357889999999999885


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      -+-.+-  ...+.+++.  +.|++||.||+|-..               .+....-.-.+|..+.+.+||.+|.|+.++.
T Consensus        97 it~~D~--~ia~~Lr~~--~kpviLvvNK~D~~~---------------~e~~~~efyslG~g~~~~ISA~Hg~Gi~dLl  157 (444)
T COG1160          97 ITPADE--EIAKILRRS--KKPVILVVNKIDNLK---------------AEELAYEFYSLGFGEPVPISAEHGRGIGDLL  157 (444)
T ss_pred             CCHHHH--HHHHHHHhc--CCCEEEEEEcccCch---------------hhhhHHHHHhcCCCCceEeehhhccCHHHHH
Confidence            544442  334444432  699999999999742               2233344456677789999999999999999


Q ss_pred             HHHHHHH
Q 030337          153 DAAIKVV  159 (179)
Q Consensus       153 ~~l~~~i  159 (179)
                      +.++..+
T Consensus       158 d~v~~~l  164 (444)
T COG1160         158 DAVLELL  164 (444)
T ss_pred             HHHHhhc
Confidence            9999987

>cd01855 YqeH YqeH

Probab=99.06  E-value=7.8e-10  Score=80.18  Aligned_cols=94  Identities=21%  Similarity=0.242  Sum_probs=65.5

Q ss_pred             ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH
Q 030337           49 YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL  128 (179)
Q Consensus        49 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  128 (179)
                      +..++..++++++++++|+|++++..-      |...+.....+.|+++|+||+|+....           ........+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~------~~~~l~~~~~~~~~ilV~NK~Dl~~~~-----------~~~~~~~~~   86 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS------LIPRLRLFGGNNPVILVGNKIDLLPKD-----------KNLVRIKNW   86 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc------cchhHHHhcCCCcEEEEEEchhcCCCC-----------CCHHHHHHH
Confidence            566778899999999999999986521      111221222468999999999996432           223333333


Q ss_pred             H-----HHhCC--CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          129 R-----KLIGS--PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       129 ~-----~~~~~--~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .     +..+.  ..++.+||++|.|++++++.+.+.+
T Consensus        87 ~~~~~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l  124 (190)
T cd01855          87 LRAKAAAGLGLKPKDVILISAKKGWGVEELINAIKKLA  124 (190)
T ss_pred             HHHHHHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3     22232  2589999999999999999998865

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.05  E-value=1.4e-09  Score=87.36  Aligned_cols=119  Identities=19%  Similarity=0.189  Sum_probs=77.0

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQ  109 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~  109 (179)
                      +......+.+|||||+++|......-+..+|++++|+|+++...-+..  ..+..+...  ++| ++++.||+|+.++..
T Consensus        70 ~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~--~~~~~~~~~--g~~~~IvviNK~D~~~~~~  145 (394)
T PRK12736         70 YETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTR--EHILLARQV--GVPYLVVFLNKVDLVDDEE  145 (394)
T ss_pred             ecCCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHH--HHHHHHHHc--CCCEEEEEEEecCCcchHH
Confidence            333445788999999998876555566789999999999875333322  222334333  577 778999999964221


Q ss_pred             cccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCC--------cHHHHHHHHHHHHh
Q 030337          110 FFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQ--------NVKAVFDAAIKVVL  160 (179)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~--------~i~~~f~~l~~~i~  160 (179)
                             ......++...+.+..+.    .+++.+||++|.        ++.++++.+.+.+-
T Consensus       146 -------~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        146 -------LLELVEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             -------HHHHHHHHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence                   000112345555555553    379999999983        56777777766543

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.05  E-value=1.7e-09  Score=78.76  Aligned_cols=106  Identities=20%  Similarity=0.201  Sum_probs=70.8

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQF  110 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~  110 (179)
                      ..+..++.+.||||+..|.......+..+|++++|+|++....-+..  ..+..+...  +.| ++++.||+|+..+.. 
T Consensus        61 ~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~--~~~~~~~~~--~~~~iIvviNK~D~~~~~~-  135 (195)
T cd01884          61 ETANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTR--EHLLLARQV--GVPYIVVFLNKADMVDDEE-  135 (195)
T ss_pred             cCCCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCcEEEEEeCCCCCCcHH-
Confidence            33446788999999988766666678899999999999875433332  333344443  466 889999999963221 


Q ss_pred             ccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcH
Q 030337          111 FIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNV  148 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i  148 (179)
                            ......++...+.+..+.    .+++.+||++|.|+
T Consensus       136 ------~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         136 ------LLELVEMEVRELLSKYGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             ------HHHHHHHHHHHHHHHhcccccCCeEEEeeCccccCC
Confidence                  001122345555555543    47999999999885

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.04  E-value=1.6e-09  Score=87.06  Aligned_cols=106  Identities=20%  Similarity=0.167  Sum_probs=68.2

Q ss_pred             EECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcE-EEEEeCCCccccc
Q 030337           30 VVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI-ILVGTKLDLRDDK  108 (179)
Q Consensus        30 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pi-ilv~nK~D~~~~~  108 (179)
                      .+......+.+|||||+++|..........+|++++|+|+++....+..  ..+..+...  .+|. +++.||+|+.+..
T Consensus        69 ~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~--e~l~~~~~~--gi~~iIvvvNK~Dl~~~~  144 (394)
T TIGR00485        69 EYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTR--EHILLARQV--GVPYIVVFLNKCDMVDDE  144 (394)
T ss_pred             EEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCEEEEEEEecccCCHH
Confidence            3444456789999999998866554556788999999999974333322  222233333  4665 4789999996532


Q ss_pred             ccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCC
Q 030337          109 QFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQ  146 (179)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~  146 (179)
                      .       ......++...+++..+.    .+++.+||++|.
T Consensus       145 ~-------~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       145 E-------LLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             H-------HHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence            1       000112356666766653    479999999875

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=99.01  E-value=6.5e-09  Score=82.89  Aligned_cols=129  Identities=21%  Similarity=0.238  Sum_probs=90.1

Q ss_pred             CceeeceeeEEEECCeEEEEEEEeCCCCcc----------ccccC-cccccCccEEEEEEeCCChhhHHHHHHHHHHHHh
Q 030337           19 PTVFDNFSANVVVDGSTVNLGLWDTAGQED----------YNRLR-PLSYRGADVFILAFSLISKASYENVAKKWIPELR   87 (179)
Q Consensus        19 pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~-~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~   87 (179)
                      -|..+.....+..+++.  +.+.||+|..+          |.... ...+..++++++|.|.+.+-+-++.  .....+.
T Consensus       211 GTTRD~I~~~~e~~~~~--~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~--~ia~~i~  286 (444)
T COG1160         211 GTTRDSIDIEFERDGRK--YVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDL--RIAGLIE  286 (444)
T ss_pred             CccccceeeeEEECCeE--EEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHH--HHHHHHH
Confidence            34456667777777844  67899999533          33221 2357789999999999999988886  5555665


Q ss_pred             hcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           88 HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        88 ~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +.  ..++++|.||+|+.+.++      .....-.++........+..+.+.+||++|.+++++|+.+....
T Consensus       287 ~~--g~~~vIvvNKWDl~~~~~------~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~  350 (444)
T COG1160         287 EA--GRGIVIVVNKWDLVEEDE------ATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIY  350 (444)
T ss_pred             Hc--CCCeEEEEEccccCCchh------hHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHH
Confidence            55  789999999999976432      00001122334444455667889999999999999999887743

>PRK09866 hypothetical protein; Provisional

Probab=98.99  E-value=5.1e-09  Score=87.09  Aligned_cols=129  Identities=15%  Similarity=0.116  Sum_probs=82.9

Q ss_pred             cCceeeceeeEEEECCeEEEEEEEeCCCCccc-----cccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCC
Q 030337           18 VPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-----NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPG   92 (179)
Q Consensus        18 ~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~   92 (179)
                      .|-|.+.+.+.--.......+.+.||||...-     .......+..+|++++|+|.++..+..+.  .+.+.+++...+
T Consensus       212 ~p~iev~f~hl~g~l~~~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De--eIlk~Lkk~~K~  289 (741)
T PRK09866        212 IPVIEVEFVHLAGLESYPGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE--EVREAILAVGQS  289 (741)
T ss_pred             CceeeeeeeeccccccccCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH--HHHHHHHhcCCC
Confidence            45554444432111112347889999997431     11233468999999999999986555543  345555554334


Q ss_pred             CcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH------hCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           93 VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL------IGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        93 ~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .|+++|.||+|+.....          ...+....+.+.      .....++.+||++|.|++.+.+.+...
T Consensus       290 ~PVILVVNKIDl~dree----------ddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~  351 (741)
T PRK09866        290 VPLYVLVNKFDQQDRNS----------DDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANN  351 (741)
T ss_pred             CCEEEEEEcccCCCccc----------chHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhC
Confidence            69999999999854221          223444444321      123468999999999999999999884

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

Probab=98.99  E-value=1e-09  Score=75.39  Aligned_cols=99  Identities=22%  Similarity=0.258  Sum_probs=74.3

Q ss_pred             EEEeCCCCc----cccccCcccccCccEEEEEEeCCChhh-HHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           39 GLWDTAGQE----DYNRLRPLSYRGADVFILAFSLISKAS-YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        39 ~i~D~~G~~----~~~~~~~~~~~~~~~~i~v~d~~~~~s-~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      .+.||||.-    +|..-.-....+|+.+++|.|.+++.+ |.   ..+...+     +.|+|-|.||+|+..+.     
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~p---P~fa~~f-----~~pvIGVITK~Dl~~~~-----  105 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFP---PGFASMF-----NKPVIGVITKIDLPSDD-----  105 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCC---chhhccc-----CCCEEEEEECccCccch-----
Confidence            368999952    222222334568999999999998753 32   1222122     58999999999998433     


Q ss_pred             CCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337          114 HPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                            ...+.++++.+.-|+..++++|+.+|.||+++.++|-
T Consensus       106 ------~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  106 ------ANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             ------hhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence                  5677889999999998899999999999999998863

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

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.97  E-value=6.6e-09  Score=86.11  Aligned_cols=72  Identities=19%  Similarity=0.224  Sum_probs=55.1

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      +..+.+.+++|||||+++|......+++.+|++|+|+|+++....+.  ..++......  ++|+++++||+|+..
T Consensus        74 ~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t--~~l~~~~~~~--~iPiiv~iNK~D~~~  145 (526)
T PRK00741         74 FPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQT--RKLMEVCRLR--DTPIFTFINKLDRDG  145 (526)
T ss_pred             EEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHH--HHHHHHHHhc--CCCEEEEEECCcccc
Confidence            34445889999999999988877778999999999999987643332  2334444333  799999999999865

>PRK13351 elongation factor G; Reviewed

Probab=98.96  E-value=8.3e-09  Score=88.38  Aligned_cols=69  Identities=22%  Similarity=0.367  Sum_probs=57.0

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      .+.+++|||||+.+|...+..+++.+|++++|+|.++..+.+.. ..| ..+...  ++|+++++||+|+...
T Consensus        72 ~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~-~~~-~~~~~~--~~p~iiviNK~D~~~~  140 (687)
T PRK13351         72 NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTE-TVW-RQADRY--GIPRLIFINKMDRVGA  140 (687)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHH-HHHHhc--CCCEEEEEECCCCCCC
Confidence            47899999999999888888899999999999999998777654 444 334333  6899999999999753

>PRK12735 elongation factor Tu; Reviewed

Probab=98.95  E-value=4.9e-09  Score=84.30  Aligned_cols=116  Identities=21%  Similarity=0.191  Sum_probs=75.2

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEE-EEEeCCCcccccccc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII-LVGTKLDLRDDKQFF  111 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pii-lv~nK~D~~~~~~~~  111 (179)
                      ....++.++||||+++|.......+..+|++++|+|+.+...-+..  ..+..+...  ++|.+ ++.||+|+.++..  
T Consensus        72 ~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~--e~l~~~~~~--gi~~iivvvNK~Dl~~~~~--  145 (396)
T PRK12735         72 TANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTR--EHILLARQV--GVPYIVVFLNKCDMVDDEE--  145 (396)
T ss_pred             CCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHH--HHHHHHHHc--CCCeEEEEEEecCCcchHH--
Confidence            3345789999999988866555667899999999999875433322  223333333  57755 6799999964221  


Q ss_pred             cCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCC----------cHHHHHHHHHHHH
Q 030337          112 IDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQ----------NVKAVFDAAIKVV  159 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~----------~i~~~f~~l~~~i  159 (179)
                           .......+...+.+.++.    .+++.+||++|.          ++..+++.|...+
T Consensus       146 -----~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        146 -----LLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             -----HHHHHHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence                 001122345556666543    478999999984          5666666666643

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.94  E-value=2.5e-09  Score=84.84  Aligned_cols=96  Identities=22%  Similarity=0.369  Sum_probs=70.9

Q ss_pred             CccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHH
Q 030337           46 QEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQG  125 (179)
Q Consensus        46 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~  125 (179)
                      .++|..+...+.++++++++|+|+.|..      ..|.+.+.+...+.|+++|+||+|+.+..           ...+..
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~------~s~~~~l~~~~~~~piilV~NK~DLl~k~-----------~~~~~~  112 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE------GSLIPELKRFVGGNPVLLVGNKIDLLPKS-----------VNLSKI  112 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC------CCccHHHHHHhCCCCEEEEEEchhhCCCC-----------CCHHHH
Confidence            4578888888899999999999997755      23444444444468999999999996532           333333


Q ss_pred             H----HHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHH
Q 030337          126 E----ELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       126 ~----~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .    ++++..++.  .++.+||++|.|++++|+.+.+.
T Consensus       113 ~~~l~~~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       113 KEWMKKRAKELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HHHHHHHHHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            3    345666652  58999999999999999998764

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.94  E-value=3.7e-09  Score=86.07  Aligned_cols=111  Identities=15%  Similarity=0.160  Sum_probs=74.4

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHH-------HHHHHHHHHHhhcCCCC-cEEEEEeCCC
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE-------NVAKKWIPELRHYAPGV-PIILVGTKLD  103 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~-------~~~~~~~~~i~~~~~~~-piilv~nK~D  103 (179)
                      ......+.+.|+||+++|.......+..+|++|+|+|+++. .|+       ....+|. .+...  .+ ++++++||+|
T Consensus        81 ~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~-~~~~~--gi~~iIV~vNKmD  156 (447)
T PLN00043         81 ETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHAL-LAFTL--GVKQMICCCNKMD  156 (447)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHH-HHHHc--CCCcEEEEEEccc
Confidence            34457899999999999988888889999999999999873 221       2212222 22222  45 5788999999


Q ss_pred             cccccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          104 LRDDKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      +....-    .........+++..+++..|+    .+++++||++|.|+.+
T Consensus       157 ~~~~~~----~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        157 ATTPKY----SKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CCchhh----hHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            862110    000001124556677777663    3699999999999854

>COG1159 Era GTPase [General function prediction only]

Probab=98.93  E-value=1.1e-08  Score=77.52  Aligned_cols=114  Identities=17%  Similarity=0.197  Sum_probs=80.8

Q ss_pred             EEEEEEEeCCCCccc--------cccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDY--------NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~--------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..++.+.||||--.-        .......++++|+++||.|++++..-.+  ...++.++.  .+.|++++.||+|..+
T Consensus        53 ~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d--~~il~~lk~--~~~pvil~iNKID~~~  128 (298)
T COG1159          53 NAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGD--EFILEQLKK--TKTPVILVVNKIDKVK  128 (298)
T ss_pred             CceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccH--HHHHHHHhh--cCCCeEEEEEccccCC
Confidence            578899999995321        1122345789999999999998654433  244556655  3689999999999876


Q ss_pred             ccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          107 DKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ...          .-......+.........+.+||++|.|++.+.+.+...+-+.
T Consensus       129 ~~~----------~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpeg  174 (298)
T COG1159         129 PKT----------VLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPEG  174 (298)
T ss_pred             cHH----------HHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCCCC
Confidence            431          1123334444455666889999999999999999999877553

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.93  E-value=1.4e-08  Score=82.42  Aligned_cols=106  Identities=17%  Similarity=0.236  Sum_probs=78.1

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      -.+.+.||||+..|..|+..-.+-+|++++|+..+|.---+-+     +.|+... .++|+|+..||+|.++.       
T Consensus       201 ~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~-----EaIkhAk~A~VpiVvAinKiDkp~a-------  268 (683)
T KOG1145|consen  201 KSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTL-----EAIKHAKSANVPIVVAINKIDKPGA-------  268 (683)
T ss_pred             CEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccHhHH-----HHHHHHHhcCCCEEEEEeccCCCCC-------
Confidence            4588999999999999998889999999999999986433332     1222222 38999999999998763       


Q ss_pred             CCCccccHHHHHHHHHHhCC--------CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          115 PGAVPITTAQGEELRKLIGS--------PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~--------~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                            +.+...+-...+|+        ...+.+||++|.|++.+-+.++-+.
T Consensus       269 ------~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  269 ------NPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             ------CHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHHH
Confidence                  33333332222222        4689999999999999998876654

>cd04169 RF3 RF3 subfamily

Probab=98.92  E-value=7.5e-09  Score=78.95  Aligned_cols=72  Identities=22%  Similarity=0.299  Sum_probs=54.7

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      +....+++++|||||+.+|.......++.+|++|+|+|+++....+.  ..+.......  ++|+++++||+|+..
T Consensus        66 ~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~--~~i~~~~~~~--~~P~iivvNK~D~~~  137 (267)
T cd04169          66 FEYRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQT--RKLFEVCRLR--GIPIITFINKLDREG  137 (267)
T ss_pred             EeeCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHH--HHHHHHHHhc--CCCEEEEEECCccCC
Confidence            44455889999999999888766778899999999999987643332  2333444333  689999999999865

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.

>cd01859 MJ1464 MJ1464

Probab=98.90  E-value=3.5e-09  Score=74.28  Aligned_cols=93  Identities=15%  Similarity=0.127  Sum_probs=63.2

Q ss_pred             ccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH
Q 030337           51 RLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK  130 (179)
Q Consensus        51 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (179)
                      .++....+++|++++|+|++++....+.  .+...+..  .+.|+++|+||+|+.+...          .  .....+.+
T Consensus         4 ~~~~~i~~~aD~vl~V~D~~~~~~~~~~--~l~~~~~~--~~~p~iiv~NK~Dl~~~~~----------~--~~~~~~~~   67 (156)
T cd01859           4 RLVRRIIKESDVVLEVLDARDPELTRSR--KLERYVLE--LGKKLLIVLNKADLVPKEV----------L--EKWKSIKE   67 (156)
T ss_pred             HHHHHHHhhCCEEEEEeeCCCCcccCCH--HHHHHHHh--CCCcEEEEEEhHHhCCHHH----------H--HHHHHHHH
Confidence            3455677889999999999887644332  22222222  2689999999999853211          1  11112333


Q ss_pred             HhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       131 ~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ..+. +++.+||+++.|++++++.+.+.+-
T Consensus        68 ~~~~-~~~~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          68 SEGI-PVVYVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             hCCC-cEEEEEccccccHHHHHHHHHHHHh
Confidence            4455 7899999999999999999987653

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.

>PRK13768 GTPase; Provisional

Probab=98.86  E-value=8.9e-09  Score=77.97  Aligned_cols=121  Identities=17%  Similarity=0.098  Sum_probs=71.7

Q ss_pred             EEEEEeCCCCccc---cccCcccccC-----ccEEEEEEeCCChhhHHHHH-HHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           37 NLGLWDTAGQEDY---NRLRPLSYRG-----ADVFILAFSLISKASYENVA-KKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        37 ~~~i~D~~G~~~~---~~~~~~~~~~-----~~~~i~v~d~~~~~s~~~~~-~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      .+.+||+||+..+   +..+..+++.     ++++++|+|+....+..+.. ..|+........+.|+++|.||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            5789999998663   3333333322     88999999997655433331 2333322222247999999999999754


Q ss_pred             cccccCCCCCcccc----------------H---HHHHHHHHHhCC-CeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          108 KQFFIDHPGAVPIT----------------T---AQGEELRKLIGS-PAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       108 ~~~~~~~~~~~~~~----------------~---~~~~~~~~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .....   ......                .   ....+..+..+. ..++++|++++.|++++.+++.+.+.
T Consensus       178 ~~~~~---~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        178 EELER---ILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             hhHHH---HHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence            32000   000000                0   000011223332 37899999999999999999988663

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.86  E-value=3e-08  Score=77.36  Aligned_cols=56  Identities=16%  Similarity=0.216  Sum_probs=39.7

Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH-HHHHHHhC
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD-AAIKVVLQ  161 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~-~l~~~i~~  161 (179)
                      ..|+++|+||.|+....              +....+........++.+||+.+.++.++.+ .+...+-.
T Consensus       214 ~KPvI~VlNK~Dl~~~~--------------~~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         214 SKPMVIAANKADIPDAE--------------NNISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             CCcEEEEEEHHHccChH--------------HHHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            47999999999974321              1112222333344799999999999999998 58887744

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

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

Probab=98.86  E-value=3.5e-08  Score=80.61  Aligned_cols=146  Identities=21%  Similarity=0.211  Sum_probs=110.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +++..|+.+.|.+++.++....+. ..+...++.-.+.+-|.+-. ....+...- ..||++.++||++++.+|..+ ..
T Consensus       440 ~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~-a~  516 (625)
T KOG1707|consen  440 ALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNPRSFEYL-AE  516 (625)
T ss_pred             HHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCchHHHHH-HH
Confidence            467889999999888888877775 33444566667888887765 333333334 789999999999999999988 34


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      .++..... ...|.++|++|+|+.+..+          ....+..+++..+++...+.+|.++... .++|..|+.....
T Consensus       517 v~~~~~~~-~~~Pc~~va~K~dlDe~~Q----------~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~~  584 (625)
T KOG1707|consen  517 VYNKYFDL-YKIPCLMVATKADLDEVPQ----------RYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQY  584 (625)
T ss_pred             HHHHhhhc-cCCceEEEeeccccchhhh----------ccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhhC
Confidence            33333222 5799999999999976442          3333448999999998889999886444 8999999998888


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      +.
T Consensus       585 Ph  586 (625)
T KOG1707|consen  585 PH  586 (625)
T ss_pred             CC
Confidence            77

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.86  E-value=6.2e-09  Score=83.95  Aligned_cols=107  Identities=18%  Similarity=0.132  Sum_probs=68.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      ..++.+|||||+++|.......+..+|++++|+|+.+...-+.. ..|. .+... ...+++++.||+|+.....     
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~-~~~~-~~~~~-~~~~iivviNK~D~~~~~~-----  150 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTR-RHSY-IASLL-GIRHVVLAVNKMDLVDYDE-----  150 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccH-HHHH-HHHHc-CCCcEEEEEEecccccchH-----
Confidence            35789999999998866555678899999999999876433322 2221 22222 2346899999999964221     


Q ss_pred             CCCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHHH
Q 030337          115 PGAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVKA  150 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~~  150 (179)
                       .......++...+.+..+.  .+++.+||++|.|+.+
T Consensus       151 -~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       151 -EVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             -HHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence             0000011223334444443  3699999999999885

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).

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.86  E-value=4.4e-09  Score=76.94  Aligned_cols=153  Identities=16%  Similarity=0.235  Sum_probs=93.8

Q ss_pred             CeeeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccc-----cccCcccccCccEEEEEEeCCChhhH
Q 030337            1 MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-----NRLRPLSYRGADVFILAFSLISKASY   75 (179)
Q Consensus         1 ~~~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~~~~i~v~d~~~~~s~   75 (179)
                      ||+++..-....-.....+||.....+....++  +.+.+||.+||+.+     ..-....+++.+++++|||++..+--
T Consensus        20 mrsiiF~ny~a~D~~rlg~tidveHsh~RflGn--l~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~   97 (295)
T KOG3886|consen   20 MRSIIFANYIARDTRRLGATIDVEHSHVRFLGN--LVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREME   97 (295)
T ss_pred             cchhhhhhhhhhhhhccCCcceeeehhhhhhhh--heeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhh
Confidence            666666544444445566777666665555566  88999999999842     33445689999999999999988644


Q ss_pred             HHHHHHH---HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           76 ENVAKKW---IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        76 ~~~~~~~---~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .++ ..+   ++.+.++.|...+.+..+|.|+.....    +........+....+....++ .++.+|.- .+.+-+++
T Consensus        98 ~D~-~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~----r~~if~~r~~~l~~~s~~~~~-~~f~Tsiw-Detl~KAW  170 (295)
T KOG3886|consen   98 KDF-HYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDA----RELIFQRRKEDLRRLSRPLEC-KCFPTSIW-DETLYKAW  170 (295)
T ss_pred             hhH-HHHHHHHHHHHhcCCcceEEEEEeechhcccch----HHHHHHHHHHHHHHhcccccc-cccccchh-hHHHHHHH
Confidence            444 333   345556667888999999999976431    000001112222333333444 56666644 34555555


Q ss_pred             HHHHHHHhCC
Q 030337          153 DAAIKVVLQP  162 (179)
Q Consensus       153 ~~l~~~i~~~  162 (179)
                      -.++..++..
T Consensus       171 S~iv~~lipn  180 (295)
T KOG3886|consen  171 SSIVYNLIPN  180 (295)
T ss_pred             HHHHHhhCCC
Confidence            5555555443

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.85  E-value=2.9e-08  Score=79.49  Aligned_cols=125  Identities=24%  Similarity=0.273  Sum_probs=87.3

Q ss_pred             CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCChhhHHHHHHHHHHHH
Q 030337           15 QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISKASYENVAKKWIPEL   86 (179)
Q Consensus        15 ~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i   86 (179)
                      .+..-|..|.....+.++|  +.+.|.||+|........        ...++.||.+++|+|.+.+.+-.+.  ..+.  
T Consensus       246 TdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~--~~~~--  319 (454)
T COG0486         246 TDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDL--ALIE--  319 (454)
T ss_pred             cCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhH--HHHH--
Confidence            3445566677788888999  889999999975443322        2347899999999999997444433  2222  


Q ss_pred             hhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           87 RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        87 ~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                       ....+.|+++|.||.|+.....               .... +..+-.+.+.+|+++|.|++.+.+.+.+.+...
T Consensus       320 -~~~~~~~~i~v~NK~DL~~~~~---------------~~~~-~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         320 -LLPKKKPIIVVLNKADLVSKIE---------------LESE-KLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             -hcccCCCEEEEEechhcccccc---------------cchh-hccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence             2224799999999999976431               1111 222222689999999999999999988866543

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.85  E-value=6.3e-08  Score=74.01  Aligned_cols=107  Identities=18%  Similarity=0.289  Sum_probs=78.2

Q ss_pred             EEEEEeCCCCccccc----cCccc---ccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCC
Q 030337           37 NLGLWDTAGQEDYNR----LRPLS---YRGADVFILAFSLISK---ASYENVAKKWIPELRHYA---PGVPIILVGTKLD  103 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~----~~~~~---~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D  103 (179)
                      .+.+=|.||.-.-..    +-..|   ++.+..++||+|++.+   +.++.+ ..+..++..+.   .+.|.++|+||+|
T Consensus       245 q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~-~lL~~ELe~yek~L~~rp~liVaNKiD  323 (366)
T KOG1489|consen  245 QITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQL-QLLIEELELYEKGLADRPALIVANKID  323 (366)
T ss_pred             eeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHH-HHHHHHHHHHhhhhccCceEEEEeccC
Confidence            388999999654333    22333   5678999999999998   777777 44444554433   5899999999999


Q ss_pred             cccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          104 LRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +++.             ......++++.+.-..++.+||++++++.++...+-.
T Consensus       324 ~~ea-------------e~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  324 LPEA-------------EKNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             chhH-------------HHHHHHHHHHHcCCCcEEEeeeccccchHHHHHHHhh
Confidence            9532             2223467777777656899999999999999887654

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.83  E-value=2.2e-08  Score=81.59  Aligned_cols=114  Identities=13%  Similarity=0.095  Sum_probs=75.3

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh-hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK-ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      ..+.+.|+||++.|......-+..+|++++|+|+++. ...+.. +++ ..+... .-.|+++|.||+|+.+...     
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~-ehl-~i~~~l-gi~~iIVvlNKiDlv~~~~-----  188 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTS-EHL-AAVEIM-KLKHIIILQNKIDLVKEAQ-----  188 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhH-HHH-HHHHHc-CCCcEEEEEecccccCHHH-----
Confidence            3688999999999877666677899999999999974 222222 222 222222 2346899999999964221     


Q ss_pred             CCCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          115 PGAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                         .....++...+.+..  ...+++.+||++|.|++.+++.|...+-
T Consensus       189 ---~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        189 ---AQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             ---HHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence               001122333333221  2247999999999999999999987554

>PRK12740 elongation factor G; Reviewed

Probab=98.83  E-value=4.2e-08  Score=83.91  Aligned_cols=72  Identities=22%  Similarity=0.347  Sum_probs=56.3

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      +.+++  +.+.+|||||+..|...+...++.+|++++|+|.++..+.+.. ..| ..+...  +.|+++|+||+|+..
T Consensus        55 ~~~~~--~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~-~~~-~~~~~~--~~p~iiv~NK~D~~~  126 (668)
T PRK12740         55 CEWKG--HKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTE-TVW-RQAEKY--GVPRIIFVNKMDRAG  126 (668)
T ss_pred             EEECC--EEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHH-HHH-HHHHHc--CCCEEEEEECCCCCC
Confidence            33444  7899999999988877777889999999999999987766654 333 333333  689999999999874

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

Probab=98.81  E-value=1.8e-08  Score=76.96  Aligned_cols=67  Identities=21%  Similarity=0.239  Sum_probs=52.7

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .++.+|||||+..|...+...++.+|++++|+|..+...-+..  .+...+...  +.|++++.||+|+..
T Consensus        64 ~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~--~~~~~~~~~--~~p~ivviNK~D~~~  130 (270)
T cd01886          64 HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTE--TVWRQADRY--NVPRIAFVNKMDRTG  130 (270)
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHH--HHHHHHHHc--CCCEEEEEECCCCCC
Confidence            7889999999998888888899999999999999876433322  333344433  689999999999964

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.78  E-value=1.7e-08  Score=82.83  Aligned_cols=109  Identities=15%  Similarity=0.102  Sum_probs=66.7

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      ...++.+|||||++.|......-++.+|++++|+|+++...-+.. ..+. .+... ...|++++.||+|+.....    
T Consensus       105 ~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~-~~~~-l~~~l-g~~~iIvvvNKiD~~~~~~----  177 (474)
T PRK05124        105 EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTR-RHSF-IATLL-GIKHLVVAVNKMDLVDYSE----  177 (474)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccch-HHHH-HHHHh-CCCceEEEEEeeccccchh----
Confidence            346788999999998865444557999999999999875422211 1211 11111 1247899999999964221    


Q ss_pred             CCCCccccHHHHHHHHHHhC---CCeEEEeccCCCCcHHHH
Q 030337          114 HPGAVPITTAQGEELRKLIG---SPAYIECSSKTQQNVKAV  151 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~---~~~~~e~Sa~~~~~i~~~  151 (179)
                        ........+...+.+..+   ..+++.+||++|.|+.+.
T Consensus       178 --~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        178 --EVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             --HHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence              000001112223333333   247999999999999764

>COG2262 HflX GTPases [General function prediction only]

Probab=98.75  E-value=1.4e-07  Score=74.41  Aligned_cols=131  Identities=19%  Similarity=0.174  Sum_probs=87.2

Q ss_pred             CCCcccCceeeceeeEEEECCeEEEEEEEeCCCC---------ccccccCcccccCccEEEEEEeCCChhhHHHHHHHHH
Q 030337           13 GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQ---------EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI   83 (179)
Q Consensus        13 f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~   83 (179)
                      +.++...+.-+-....+.+++ .-.+.+-||-|=         +.|++.. .....+|.++.|+|+++|...+.+ ..-.
T Consensus       218 ~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTL-EE~~~aDlllhVVDaSdp~~~~~~-~~v~  294 (411)
T COG2262         218 YVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTL-EEVKEADLLLHVVDASDPEILEKL-EAVE  294 (411)
T ss_pred             eccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHH-HHhhcCCEEEEEeecCChhHHHHH-HHHH
Confidence            334444444444455666653 245778899992         1233221 235789999999999999777666 5555


Q ss_pred             HHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           84 PELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        84 ~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..+.+.. .+.|+++|.||+|+..+.               .......... +..+.+||++|.|++.+.+.|...+...
T Consensus       295 ~vL~el~~~~~p~i~v~NKiD~~~~~---------------~~~~~~~~~~-~~~v~iSA~~~~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         295 DVLAEIGADEIPIILVLNKIDLLEDE---------------EILAELERGS-PNPVFISAKTGEGLDLLRERIIELLSGL  358 (411)
T ss_pred             HHHHHcCCCCCCEEEEEecccccCch---------------hhhhhhhhcC-CCeEEEEeccCcCHHHHHHHHHHHhhhc
Confidence            5666554 579999999999985422               1122222222 2588999999999999999999877643

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.74  E-value=5.3e-08  Score=76.09  Aligned_cols=150  Identities=19%  Similarity=0.201  Sum_probs=96.3

Q ss_pred             CCCCCcccCceeecee----------eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhH-----
Q 030337           11 SLGKQDYVPTVFDNFS----------ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY-----   75 (179)
Q Consensus        11 ~~f~~~~~pt~~~~~~----------~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~-----   75 (179)
                      ....++|.||..|...          ..+.+.+  +.+.++|+|||..-+.-|...+.+++++|||.++++-+..     
T Consensus       162 rI~~~~Y~PT~~DIL~~R~~T~GI~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~  239 (354)
T KOG0082|consen  162 RISSPDYVPTEQDILRSRVPTTGIVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDE  239 (354)
T ss_pred             HhcCCCCCCCHHHHHhhccCcCCeeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhccccc
Confidence            3567888888654332          2233344  7899999999998899999999999999999999965322     


Q ss_pred             --HHHHHHHHHHHhhcC-----CCCcEEEEEeCCCcccccccc-----cCCCCCccccHHHHHHHHHH--------h--C
Q 030337           76 --ENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFF-----IDHPGAVPITTAQGEELRKL--------I--G  133 (179)
Q Consensus        76 --~~~~~~~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~--------~--~  133 (179)
                        +.+ .+-+..+...+     .+++++|..||.|+..+.-..     ......-.-..+.+..+...        .  .
T Consensus       240 ~~NRM-~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~  318 (354)
T KOG0082|consen  240 TTNRM-HESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKK  318 (354)
T ss_pred             chhHH-HHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCc
Confidence              112 22233333322     489999999999997653221     01111111122333322211        1  2


Q ss_pred             CCeEEEeccCCCCcHHHHHHHHHHHHhCCch
Q 030337          134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPK  164 (179)
Q Consensus       134 ~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~~  164 (179)
                      + -...++|.+..+|+.+|..+.+.+++...
T Consensus       319 i-y~h~T~AtDT~nv~~vf~av~d~Ii~~nl  348 (354)
T KOG0082|consen  319 I-YVHFTCATDTQNVQFVFDAVTDTIIQNNL  348 (354)
T ss_pred             c-eEEEEeeccHHHHHHHHHHHHHHHHHHHH
Confidence            2 34567999999999999999998876543

>cd01850 CDC_Septin CDC/Septin

Probab=98.72  E-value=1e-07  Score=73.09  Aligned_cols=126  Identities=14%  Similarity=0.012  Sum_probs=75.0

Q ss_pred             eeehhhhhCCCCCc----------ccCceee-ceeeEEEECCeEEEEEEEeCCCCcc-----------------------
Q 030337            3 FIYIICNYSLGKQD----------YVPTVFD-NFSANVVVDGSTVNLGLWDTAGQED-----------------------   48 (179)
Q Consensus         3 ~l~~~~~~~~f~~~----------~~pt~~~-~~~~~~~~~~~~~~~~i~D~~G~~~-----------------------   48 (179)
                      +|+.++.++.+...          ..+|++. .+...+..+|..+.+.||||||-..                       
T Consensus        19 TliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l   98 (276)
T cd01850          19 TFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYL   98 (276)
T ss_pred             HHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHHHHHHHH
Confidence            35566666666433          4556543 3345566678889999999999322                       


Q ss_pred             ---ccccCccccc--CccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccH
Q 030337           49 ---YNRLRPLSYR--GADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT  122 (179)
Q Consensus        49 ---~~~~~~~~~~--~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~  122 (179)
                         ....+...+.  .+|+++++.+.+... +-.++  .+++.+..   .+|+++|+||+|+.....        .....
T Consensus        99 ~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~--~~lk~l~~---~v~vi~VinK~D~l~~~e--------~~~~k  165 (276)
T cd01850          99 REESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDI--EFMKRLSK---RVNIIPVIAKADTLTPEE--------LKEFK  165 (276)
T ss_pred             HHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHH--HHHHHHhc---cCCEEEEEECCCcCCHHH--------HHHHH
Confidence               2222224454  467777777766421 12222  33444443   589999999999965221        11234


Q ss_pred             HHHHHHHHHhCCCeEEEecc
Q 030337          123 AQGEELRKLIGSPAYIECSS  142 (179)
Q Consensus       123 ~~~~~~~~~~~~~~~~e~Sa  142 (179)
                      ....+.++.+++ .++....
T Consensus       166 ~~i~~~l~~~~i-~~~~~~~  184 (276)
T cd01850         166 QRIMEDIEEHNI-KIYKFPE  184 (276)
T ss_pred             HHHHHHHHHcCC-ceECCCC
Confidence            556667777787 6666554

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.71  E-value=6.1e-08  Score=83.10  Aligned_cols=73  Identities=21%  Similarity=0.233  Sum_probs=57.0

Q ss_pred             EEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           28 NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .+.+++  .++.+|||||+.++...+...++.+|++++|+|+++....+..  .+...+...  +.|+++++||+|+..
T Consensus        69 ~~~~~~--~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~--~~~~~~~~~--~~p~ivviNK~D~~~  141 (689)
T TIGR00484        69 TVFWKG--HRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE--TVWRQANRY--EVPRIAFVNKMDKTG  141 (689)
T ss_pred             EEEECC--eEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH--HHHHHHHHc--CCCEEEEEECCCCCC
Confidence            344444  7899999999998877778889999999999999987666543  333344443  689999999999965

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.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.70  E-value=2.9e-07  Score=66.65  Aligned_cols=101  Identities=15%  Similarity=0.132  Sum_probs=66.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCccccc---CccEEEEEEeCCC-hhhHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR---GADVFILAFSLIS-KASYENV   78 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~~~~i~v~d~~~-~~s~~~~   78 (179)
                      +|+.+..+|.+.+.+ +++.++ .-...+++.  .+++.|.||+.+.+.-...+++   .+-++|||+|..- +....++
T Consensus        53 ~LF~qL~~gs~~~Tv-tSiepn-~a~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdv  128 (238)
T KOG0090|consen   53 SLFTQLITGSHRGTV-TSIEPN-EATYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDV  128 (238)
T ss_pred             eeeeehhcCCccCee-eeeccc-eeeEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHH
Confidence            467777778664432 222211 112223332  3889999999998876666666   7999999999773 3455666


Q ss_pred             HHHHHHHHhhc--C-CCCcEEEEEeCCCcccc
Q 030337           79 AKKWIPELRHY--A-PGVPIILVGTKLDLRDD  107 (179)
Q Consensus        79 ~~~~~~~i~~~--~-~~~piilv~nK~D~~~~  107 (179)
                      .+.++..+...  . +.+|++++.||.|+...
T Consensus       129 aefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen  129 AEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             HHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            45556555544  2 57999999999999653

>CHL00071 tufA elongation factor Tu

Probab=98.70  E-value=7.7e-08  Score=77.73  Aligned_cols=104  Identities=19%  Similarity=0.152  Sum_probs=68.9

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCccccccccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFI  112 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~  112 (179)
                      +..++.+.||||+.+|.......+..+|++++|+|+.+...-+..  ..+..+...  ++| ++++.||+|+.+...   
T Consensus        73 ~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~--~~~~~~~~~--g~~~iIvvvNK~D~~~~~~---  145 (409)
T CHL00071         73 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTK--EHILLAKQV--GVPNIVVFLNKEDQVDDEE---  145 (409)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCEEEEEEEccCCCCHHH---
Confidence            345778999999988766555667899999999999875433332  233344433  578 778999999965321   


Q ss_pred             CCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcH
Q 030337          113 DHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNV  148 (179)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i  148 (179)
                          ....-.++...+.+..+.    .+++.+||.+|.|+
T Consensus       146 ----~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        146 ----LLELVELEVRELLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             ----HHHHHHHHHHHHHHHhCCCCCcceEEEcchhhcccc
Confidence                000112345555555543    47899999998643

>PRK00049 elongation factor Tu; Reviewed

Probab=98.69  E-value=1.6e-07  Score=75.54  Aligned_cols=114  Identities=21%  Similarity=0.184  Sum_probs=72.7

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEE-EEEeCCCccccccccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII-LVGTKLDLRDDKQFFI  112 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pii-lv~nK~D~~~~~~~~~  112 (179)
                      ...++.+.||||+.+|.......+..+|++++|+|+.+...-+..  .++..+...  +.|++ ++.||+|+.+...   
T Consensus        73 ~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~--~~~~~~~~~--g~p~iiVvvNK~D~~~~~~---  145 (396)
T PRK00049         73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTR--EHILLARQV--GVPYIVVFLNKCDMVDDEE---  145 (396)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHH--HHHHHHHHc--CCCEEEEEEeecCCcchHH---
Confidence            345778999999988766656678899999999999876443332  333444443  57875 6899999964221   


Q ss_pred             CCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCC----------cHHHHHHHHHHH
Q 030337          113 DHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQ----------NVKAVFDAAIKV  158 (179)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~----------~i~~~f~~l~~~  158 (179)
                          .......+...+....+.    .+++.+||++|.          ++..+++.|...
T Consensus       146 ----~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        146 ----LLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             ----HHHHHHHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhc
Confidence                000111234444444432    478999999875          355566555553

>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=98.69  E-value=8.8e-09  Score=73.71  Aligned_cols=102  Identities=17%  Similarity=0.115  Sum_probs=60.7

Q ss_pred             eehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcc---cccCccEEEEEEeCCC-hhhHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPL---SYRGADVFILAFSLIS-KASYENVA   79 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---~~~~~~~~i~v~d~~~-~~s~~~~~   79 (179)
                      |+.++.++.+.+.+.+- ..+....+ -+...-.+.+.|+||+++.+.....   +..++.++|||.|.+. +....+++
T Consensus        19 Lf~~L~~~~~~~T~tS~-e~n~~~~~-~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~A   96 (181)
T PF09439_consen   19 LFSQLVNGKTVPTVTSM-ENNIAYNV-NNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVA   96 (181)
T ss_dssp             HHHHHHHSS---B---S-SEEEECCG-SSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHH
T ss_pred             HHHHHhcCCcCCeeccc-cCCceEEe-ecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHH
Confidence            56677777554432222 21111111 1223346899999999998874333   4788999999999974 55677775


Q ss_pred             HHHHHHHhhcC---CCCcEEEEEeCCCcccc
Q 030337           80 KKWIPELRHYA---PGVPIILVGTKLDLRDD  107 (179)
Q Consensus        80 ~~~~~~i~~~~---~~~piilv~nK~D~~~~  107 (179)
                      +.++..+....   ..+|++|+.||.|+...
T Consensus        97 e~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   97 EYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             HHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             HHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            66666554332   57999999999999753

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.67  E-value=7.5e-08  Score=80.68  Aligned_cols=117  Identities=17%  Similarity=0.213  Sum_probs=80.5

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      -+.+.||||+|.|..++......||.+|+|+|+...   .+.+.+     +.++..  ++|+||..||+|....+.+.++
T Consensus       541 g~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi-----~lLR~r--ktpFivALNKiDRLYgwk~~p~  613 (1064)
T KOG1144|consen  541 GLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESI-----NLLRMR--KTPFIVALNKIDRLYGWKSCPN  613 (1064)
T ss_pred             eeEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHH-----HHHHhc--CCCeEEeehhhhhhcccccCCC
Confidence            378899999999999999999999999999999854   444443     344443  7999999999999877654322


Q ss_pred             CCCCccc-------cH-------HHHHHHHHH-hCC------------CeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          114 HPGAVPI-------TT-------AQGEELRKL-IGS------------PAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       114 ~~~~~~~-------~~-------~~~~~~~~~-~~~------------~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .+.....       ..       ....+|+.. ++.            ..++.+||.+|.||..++.+|+....
T Consensus       614 ~~i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQ  687 (1064)
T KOG1144|consen  614 APIVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQ  687 (1064)
T ss_pred             chHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHH
Confidence            2211111       00       111122221 111            24567999999999999999988543

>cd01858 NGP_1 NGP-1

Probab=98.67  E-value=1.3e-07  Score=66.39  Aligned_cols=91  Identities=16%  Similarity=0.062  Sum_probs=58.1

Q ss_pred             ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC
Q 030337           55 LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS  134 (179)
Q Consensus        55 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (179)
                      ..++++|.+++|.|+.++..-.+  ..+.+.+.....+.|+++|.||+|+.+..           ........+.+.+..
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~--~~i~~~l~~~~~~~p~ilVlNKiDl~~~~-----------~~~~~~~~~~~~~~~   70 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRC--KHVEEYLKKEKPHKHLIFVLNKCDLVPTW-----------VTARWVKILSKEYPT   70 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccC--HHHHHHHHhccCCCCEEEEEEchhcCCHH-----------HHHHHHHHHhcCCcE
Confidence            35678999999999998753221  22333343333358999999999995422           111122222222222


Q ss_pred             CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          135 PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       135 ~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                       ..+.+||+++.|++++.+.+...+
T Consensus        71 -~~~~iSa~~~~~~~~L~~~l~~~~   94 (157)
T cd01858          71 -IAFHASINNPFGKGSLIQLLRQFS   94 (157)
T ss_pred             -EEEEeeccccccHHHHHHHHHHHH
Confidence             246799999999999999987653

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.66  E-value=2.8e-07  Score=67.21  Aligned_cols=119  Identities=15%  Similarity=0.156  Sum_probs=69.2

Q ss_pred             EEEEEeCCCCccccccCc-----ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc-
Q 030337           37 NLGLWDTAGQEDYNRLRP-----LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF-  110 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~-----~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~-  110 (179)
                      .+.+|||+|.........     ..+.++|+++++.+ .   +|......|++.+++.  ..|+++|+||+|+...... 
T Consensus        53 ~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~-~---~~~~~d~~~~~~l~~~--~~~~ilV~nK~D~~~~~~~~  126 (197)
T cd04104          53 NVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISS-T---RFSSNDVKLAKAIQCM--GKKFYFVRTKVDRDLSNEQR  126 (197)
T ss_pred             CceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeC-C---CCCHHHHHHHHHHHHh--CCCEEEEEecccchhhhhhc
Confidence            689999999754322222     23677898888743 2   2333324666777665  5799999999999532110 


Q ss_pred             ccCCCCCccccHHHHHHH----HHH--hCCCeEEEeccC--CCCcHHHHHHHHHHHHhC
Q 030337          111 FIDHPGAVPITTAQGEEL----RKL--IGSPAYIECSSK--TQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~----~~~--~~~~~~~e~Sa~--~~~~i~~~f~~l~~~i~~  161 (179)
                      +......+....++.++.    ...  ...+.++-+|+.  .+.++..+.+.++..+-.
T Consensus       127 ~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~  185 (197)
T cd04104         127 SKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPA  185 (197)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhH
Confidence            000000011111122222    222  123568889998  578999999988887754

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

>TIGR00503 prfC peptide chain release factor 3

Probab=98.65  E-value=1.1e-07  Score=78.87  Aligned_cols=74  Identities=19%  Similarity=0.204  Sum_probs=55.0

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..++...+.+.+|||||+..|.......++.+|++|+|+|+++...-+ . ..+....+.  .++|+++++||+|+..
T Consensus        73 ~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t-~~l~~~~~~--~~~PiivviNKiD~~~  146 (527)
T TIGR00503        73 MQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETR-T-RKLMEVTRL--RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             EEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHH-H-HHHHHHHHh--cCCCEEEEEECccccC
Confidence            344555689999999999988776667889999999999998753222 1 234444433  3689999999999864

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.

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.64  E-value=2e-07  Score=74.93  Aligned_cols=146  Identities=19%  Similarity=0.210  Sum_probs=88.9

Q ss_pred             CCCCcccCceeecee----------eEEEE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-------
Q 030337           12 LGKQDYVPTVFDNFS----------ANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-------   73 (179)
Q Consensus        12 ~f~~~~~pt~~~~~~----------~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-------   73 (179)
                      .+.++|.||..|.+.          ..+.+ ++  ..+.++|+||+...+..|..++.+++++|||+++++-.       
T Consensus       203 I~~~~Y~PT~~DIl~~r~~T~Gi~e~~f~~~~~--~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~  280 (389)
T PF00503_consen  203 IAQPDYIPTDEDILRCRVKTTGITEIDFNFSGS--RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDP  280 (389)
T ss_dssp             HHSTTB---HHHHHHS----SSEEEEEEEE-TT--EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSST
T ss_pred             hcCCCccCCCCCeeeecCCCCCeeEEEEEeecc--cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccc
Confidence            356778888654332          22333 33  67899999999989999999999999999999987432       


Q ss_pred             ---hHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc--------cCCCCCccccHHHHHHHHHH--------h-
Q 030337           74 ---SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF--------IDHPGAVPITTAQGEELRKL--------I-  132 (179)
Q Consensus        74 ---s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~--------~-  132 (179)
                         .+.+....|-..+.... .++|++|+.||.|+..+.-..        +.-.+..+-..+.+..+...        . 
T Consensus       281 ~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~  360 (389)
T PF00503_consen  281 NTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNS  360 (389)
T ss_dssp             TSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTT
T ss_pred             hHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCC
Confidence               23443233333333222 589999999999996532110        00011111334444444332        1 


Q ss_pred             --CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          133 --GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       133 --~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                        ....+..++|.+..++..+|..+.+.|
T Consensus       361 ~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  361 PSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             TCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             CCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence              111355799999999999999887643

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 ....

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.63  E-value=7.5e-08  Score=81.82  Aligned_cols=106  Identities=20%  Similarity=0.134  Sum_probs=66.5

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      .++.++||||++.|.......+..+|++++|+|+++...-+.. ..+ ..+... ...|++++.||+|+.+...      
T Consensus       104 ~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~-e~~-~~~~~~-~~~~iivvvNK~D~~~~~~------  174 (632)
T PRK05506        104 RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTR-RHS-FIASLL-GIRHVVLAVNKMDLVDYDQ------  174 (632)
T ss_pred             ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCH-HHH-HHHHHh-CCCeEEEEEEecccccchh------
Confidence            5678999999998765444567899999999999865433221 111 122222 2357899999999964211      


Q ss_pred             CCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHHH
Q 030337          116 GAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVKA  150 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~~  150 (179)
                      ........+...+.+..+.  .+++.+||++|.|+.+
T Consensus       175 ~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        175 EVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            0000011223334445454  3589999999999874

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.61  E-value=5.9e-07  Score=72.04  Aligned_cols=118  Identities=16%  Similarity=0.170  Sum_probs=82.3

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      ++.+.++++|.||||+.+|....+..++-+|++++++|+.+..-.+-- ....+.+.   ...+.|+|.||+|.+..+. 
T Consensus        63 v~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTr-FVlkKAl~---~gL~PIVVvNKiDrp~Arp-  137 (603)
T COG1217          63 VNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTR-FVLKKALA---LGLKPIVVINKIDRPDARP-  137 (603)
T ss_pred             eecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCchh-hhHHHHHH---cCCCcEEEEeCCCCCCCCH-
Confidence            333448999999999999999999999999999999999986533321 12222332   2577888999999976432 


Q ss_pred             ccCCCCCccccHHHHHHHHHH-------hCCCeEEEeccCCC----------CcHHHHHHHHHHHHhCC
Q 030337          111 FIDHPGAVPITTAQGEELRKL-------IGSPAYIECSSKTQ----------QNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~e~Sa~~~----------~~i~~~f~~l~~~i~~~  162 (179)
                             .++ .++.-.+.-.       +++ +++-.|+++|          .+...+|+.+++.+-.+
T Consensus       138 -------~~V-vd~vfDLf~~L~A~deQLdF-PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P  197 (603)
T COG1217         138 -------DEV-VDEVFDLFVELGATDEQLDF-PIVYASARNGTASLDPEDEADDMAPLFETILDHVPAP  197 (603)
T ss_pred             -------HHH-HHHHHHHHHHhCCChhhCCC-cEEEeeccCceeccCccccccchhHHHHHHHHhCCCC
Confidence                   112 2333444433       344 6777888887          46788899988877544

>PLN03126 Elongation factor Tu; Provisional

Probab=98.61  E-value=1.1e-07  Score=78.06  Aligned_cols=103  Identities=19%  Similarity=0.142  Sum_probs=68.2

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCccccccccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFI  112 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~  112 (179)
                      +...+.++|+||++.|.......+..+|++++|+|+.+...-+..  +++..+...  ++| ++++.||+|+.+...   
T Consensus       142 ~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~--e~~~~~~~~--gi~~iIvvvNK~Dl~~~~~---  214 (478)
T PLN03126        142 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTK--EHILLAKQV--GVPNMVVFLNKQDQVDDEE---  214 (478)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCeEEEEEecccccCHHH---
Confidence            346789999999999877666667889999999999976544432  333344443  577 788999999965221   


Q ss_pred             CCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCc
Q 030337          113 DHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQN  147 (179)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~  147 (179)
                          ....-.++...+.+..++    .+++.+|+.+|.+
T Consensus       215 ----~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        215 ----LLELVELEVRELLSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             ----HHHHHHHHHHHHHHhcCCCcCcceEEEEEcccccc
Confidence                000112244555555432    3789999998854

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

Probab=98.60  E-value=2.6e-07  Score=61.74  Aligned_cols=99  Identities=20%  Similarity=0.196  Sum_probs=71.2

Q ss_pred             eeehhhhhCCCCCccc-CceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYV-PTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~-pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||.++.|.+++. ||+|                          +..+...+.+.++++++||+.+++.+++.+   
T Consensus        15 ~l~~~~~~~~~~~~~~~~t~~--------------------------~~~~~~~~~~s~~~~~~v~~~~~~~s~~~~---   65 (124)
T smart00010       15 GKSARFVQFPFDYVPTVFTIG--------------------------IDVYDPTSYESFDVVLQCWRVDDRDSADNK---   65 (124)
T ss_pred             HHHHHHhcCCccccCceehhh--------------------------hhhccccccCCCCEEEEEEEccCHHHHHHH---
Confidence            5788999999987766 7766                          333445678899999999999999999754   


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      |...+.... .++|+++++||.|+..+.          .+..+.+.         .++++|++++.|+.
T Consensus        66 ~~~~i~~~~k~dl~~~~~~nk~dl~~~~----------~~~~~~~~---------~~~~~s~~~~~~~~  115 (124)
T smart00010       66 NVPEVLVGNKSDLPILVGGNRDVLEEER----------QVATEEGL---------EFAETSAKTPEEGE  115 (124)
T ss_pred             hHHHHHhcCCCCCcEEEEeechhhHhhC----------cCCHHHHH---------HHHHHhCCCcchhh
Confidence            766665444 478999999999984321          13322222         35567888998885

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=98.59  E-value=5e-07  Score=73.68  Aligned_cols=118  Identities=20%  Similarity=0.202  Sum_probs=71.1

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQ  109 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~  109 (179)
                      +..+..++.+.||||++.|-.....-...+|++++|+|..+...-+..  +.+..+...  ++| ++++.||+|+.++..
T Consensus       119 ~~~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~--e~l~~~~~~--gip~iIvviNKiDlv~~~~  194 (447)
T PLN03127        119 YETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTK--EHILLARQV--GVPSLVVFLNKVDVVDDEE  194 (447)
T ss_pred             EcCCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHH--HHHHHHHHc--CCCeEEEEEEeeccCCHHH
Confidence            333446788999999988765444556679999999999876433332  223344433  578 578899999964221


Q ss_pred             cccCCCCCccccHHHHHHHHHHhCC----CeEEEeccC---CCCc-------HHHHHHHHHHHH
Q 030337          110 FFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSK---TQQN-------VKAVFDAAIKVV  159 (179)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~---~~~~-------i~~~f~~l~~~i  159 (179)
                             ....-..+...+....+.    .+++.+|+.   +|.|       +.++++.+...+
T Consensus       195 -------~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        195 -------LLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             -------HHHHHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhC
Confidence                   000011233344443332    367787775   4555       566777766654

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.58  E-value=2.1e-07  Score=75.94  Aligned_cols=110  Identities=17%  Similarity=0.156  Sum_probs=70.5

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hH---HHHHHHHHHHHhhcCCCCc-EEEEEeCCCc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SY---ENVAKKWIPELRHYAPGVP-IILVGTKLDL  104 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~---~~~~~~~~~~i~~~~~~~p-iilv~nK~D~  104 (179)
                      ......+.|.||||+++|.......+..+|++++|+|+++..   .|   .....+|. .+...  .+| ++++.||+|.
T Consensus        81 ~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~~--gi~~iiv~vNKmD~  157 (446)
T PTZ00141         81 ETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHAL-LAFTL--GVKQMIVCINKMDD  157 (446)
T ss_pred             ccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHHc--CCCeEEEEEEcccc
Confidence            334578999999999998877777789999999999998753   11   11112332 33333  555 7799999995


Q ss_pred             cc--ccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          105 RD--DKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       105 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      ..  ...      .......++...+.+..++    .+++.+|+.+|.|+.+
T Consensus       158 ~~~~~~~------~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        158 KTVNYSQ------ERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             ccchhhH------HHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            32  110      0001122344444454443    4789999999999864

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.58  E-value=4.6e-07  Score=69.22  Aligned_cols=68  Identities=25%  Similarity=0.316  Sum_probs=53.5

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .+.+.+|||||+..|...+...++.+|++++|+|.++....+.. ..| ..+...  +.|+++++||+|+..
T Consensus        63 ~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~-~~~-~~~~~~--~~p~iivvNK~D~~~  130 (268)
T cd04170          63 GHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTE-KLW-EFADEA--GIPRIIFINKMDRER  130 (268)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHH-HHH-HHHHHc--CCCEEEEEECCccCC
Confidence            37899999999988877777889999999999999987665533 233 233333  689999999999865

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

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.50  E-value=4.6e-07  Score=62.56  Aligned_cols=77  Identities=16%  Similarity=0.155  Sum_probs=52.3

Q ss_pred             ccccCccEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC
Q 030337           55 LSYRGADVFILAFSLISKASYENV-AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG  133 (179)
Q Consensus        55 ~~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (179)
                      ..+.++|++++|+|+.++.+..+. ...|+...   ..+.|+++|.||+|+.++.            ......+..+..+
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~~~k~~iivlNK~DL~~~~------------~~~~~~~~~~~~~   71 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---DPRKKNILLLNKADLLTEE------------QRKAWAEYFKKEG   71 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---cCCCcEEEEEechhcCCHH------------HHHHHHHHHHhcC
Confidence            356789999999999998765531 13443332   2468999999999995422            1223344555566


Q ss_pred             CCeEEEeccCCCCc
Q 030337          134 SPAYIECSSKTQQN  147 (179)
Q Consensus       134 ~~~~~e~Sa~~~~~  147 (179)
                      . .++.+||+++.+
T Consensus        72 ~-~ii~iSa~~~~~   84 (141)
T cd01857          72 I-VVVFFSALKENA   84 (141)
T ss_pred             C-eEEEEEecCCCc
Confidence            5 789999998764

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.50  E-value=8.7e-07  Score=62.13  Aligned_cols=82  Identities=20%  Similarity=0.120  Sum_probs=54.6

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHH--HHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEE
Q 030337           61 DVFILAFSLISKASYENVAKKWIP--ELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI  138 (179)
Q Consensus        61 ~~~i~v~d~~~~~s~~~~~~~~~~--~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (179)
                      |++++|+|+.+|.+....   ++.  .+..  .+.|+++|.||+|+.....          + ......+.+..+ ...+
T Consensus         1 Dvvl~VvD~~~p~~~~~~---~i~~~~~~~--~~~p~IiVlNK~Dl~~~~~----------~-~~~~~~~~~~~~-~~ii   63 (155)
T cd01849           1 DVILEVLDARDPLGTRSP---DIERVLIKE--KGKKLILVLNKADLVPKEV----------L-RKWLAYLRHSYP-TIPF   63 (155)
T ss_pred             CEEEEEEeccCCccccCH---HHHHHHHhc--CCCCEEEEEechhcCCHHH----------H-HHHHHHHHhhCC-ceEE
Confidence            679999999988766532   222  2222  3689999999999954210          1 111112322333 3678


Q ss_pred             EeccCCCCcHHHHHHHHHHHH
Q 030337          139 ECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       139 e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .+||+++.|++++.+.+....
T Consensus        64 ~vSa~~~~gi~~L~~~i~~~~   84 (155)
T cd01849          64 KISATNGQGIEKKESAFTKQT   84 (155)
T ss_pred             EEeccCCcChhhHHHHHHHHh
Confidence            999999999999999987764

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.47  E-value=2.1e-07  Score=80.18  Aligned_cols=85  Identities=16%  Similarity=0.061  Sum_probs=59.9

Q ss_pred             cCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEE
Q 030337           18 VPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII   96 (179)
Q Consensus        18 ~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pii   96 (179)
                      ..|+..... ....+++..+.+.+|||||+.+|.......++.+|++++|+|+.+....+.. ..|. .+...  +.|++
T Consensus        67 g~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~-~~~~-~~~~~--~~p~i  142 (720)
T TIGR00490        67 GITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTE-TVLR-QALKE--NVKPV  142 (720)
T ss_pred             cchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHH-HHHH-HHHHc--CCCEE
Confidence            346653332 3334566678999999999999887777889999999999999875433332 2232 22222  57889


Q ss_pred             EEEeCCCccc
Q 030337           97 LVGTKLDLRD  106 (179)
Q Consensus        97 lv~nK~D~~~  106 (179)
                      +++||+|...
T Consensus       143 vviNKiD~~~  152 (720)
T TIGR00490       143 LFINKVDRLI  152 (720)
T ss_pred             EEEEChhccc
Confidence            9999999964

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.44  E-value=1.5e-06  Score=69.19  Aligned_cols=85  Identities=20%  Similarity=0.381  Sum_probs=59.2

Q ss_pred             ccCcc-EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH----HHHHH
Q 030337           57 YRGAD-VFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE----ELRKL  131 (179)
Q Consensus        57 ~~~~~-~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~----~~~~~  131 (179)
                      +..++ .+++|+|+.|..      ..|.+.+.+...+.|+++|+||+|+.+..           ...+...    .+++.
T Consensus        66 i~~~~~lIv~VVD~~D~~------~s~~~~L~~~~~~kpviLViNK~DLl~~~-----------~~~~~i~~~l~~~~k~  128 (365)
T PRK13796         66 IGDSDALVVNVVDIFDFN------GSWIPGLHRFVGNNPVLLVGNKADLLPKS-----------VKKNKVKNWLRQEAKE  128 (365)
T ss_pred             hcccCcEEEEEEECccCC------CchhHHHHHHhCCCCEEEEEEchhhCCCc-----------cCHHHHHHHHHHHHHh
Confidence            34455 999999998744      23444555444578999999999996522           2233333    34555


Q ss_pred             hCCC--eEEEeccCCCCcHHHHHHHHHHH
Q 030337          132 IGSP--AYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       132 ~~~~--~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .++.  .++.+||+++.|++++++.+.+.
T Consensus       129 ~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        129 LGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             cCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            5652  57899999999999999999764

>PRK01889 GTPase RsgA; Reviewed

Probab=98.41  E-value=8.2e-06  Score=64.84  Aligned_cols=83  Identities=16%  Similarity=0.185  Sum_probs=59.0

Q ss_pred             ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-HhCCC
Q 030337           57 YRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-LIGSP  135 (179)
Q Consensus        57 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  135 (179)
                      ..|+|.+++|.++..+-....+ +.++..+...  ++|.+||.||+|+.++.             .+....+.. ..+. 
T Consensus       110 aANvD~vliV~s~~p~~~~~~l-dr~L~~a~~~--~i~piIVLNK~DL~~~~-------------~~~~~~~~~~~~g~-  172 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRI-ERYLALAWES--GAEPVIVLTKADLCEDA-------------EEKIAEVEALAPGV-  172 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHH-HHHHHHHHHc--CCCEEEEEEChhcCCCH-------------HHHHHHHHHhCCCC-
Confidence            6899999999999744455455 6676666554  67889999999996421             112222222 2354 


Q ss_pred             eEEEeccCCCCcHHHHHHHHH
Q 030337          136 AYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus       136 ~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      +.+.+|++++.|++++..++-
T Consensus       173 ~Vi~vSa~~g~gl~~L~~~L~  193 (356)
T PRK01889        173 PVLAVSALDGEGLDVLAAWLS  193 (356)
T ss_pred             cEEEEECCCCccHHHHHHHhh
Confidence            789999999999999888874

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.38  E-value=1.4e-06  Score=67.71  Aligned_cols=107  Identities=21%  Similarity=0.187  Sum_probs=71.5

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      .+-++.|-||||+|.|......-...||+.|+++|+-..-.-+.-...++..+   .+=..+++..||+|+.+-.+    
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sL---LGIrhvvvAVNKmDLvdy~e----  156 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASL---LGIRHVVVAVNKMDLVDYSE----  156 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHH---hCCcEEEEEEeeecccccCH----
Confidence            44579999999999998877778889999999999854322221111222222   22356999999999987442    


Q ss_pred             CCCCccccHHHHHHHHHHhCC--CeEEEeccCCCCcHH
Q 030337          114 HPGAVPITTAQGEELRKLIGS--PAYIECSSKTQQNVK  149 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~~i~  149 (179)
                        .....-..+-..|++.++.  ..++.+||+.|.||.
T Consensus       157 --~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         157 --EVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             --HHHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence              0111112334567777776  357889999999985

>cd01856 YlqF YlqF

Probab=98.36  E-value=5.3e-07  Score=64.26  Aligned_cols=88  Identities=24%  Similarity=0.147  Sum_probs=59.5

Q ss_pred             CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh
Q 030337           53 RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI  132 (179)
Q Consensus        53 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (179)
                      ....++++|.+++|+|+.++....+.  .+...+    .+.|+++|.||+|+.+..            ......++.+..
T Consensus        13 ~~~~i~~aD~il~v~D~~~~~~~~~~--~i~~~~----~~k~~ilVlNK~Dl~~~~------------~~~~~~~~~~~~   74 (171)
T cd01856          13 IKEKLKLVDLVIEVRDARIPLSSRNP--LLEKIL----GNKPRIIVLNKADLADPK------------KTKKWLKYFESK   74 (171)
T ss_pred             HHHHHhhCCEEEEEeeccCccCcCCh--hhHhHh----cCCCEEEEEehhhcCChH------------HHHHHHHHHHhc
Confidence            34567899999999999887643322  222222    257999999999995321            111111222333


Q ss_pred             CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          133 GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       133 ~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +. .++.+||+++.|++++...+...+
T Consensus        75 ~~-~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          75 GE-KVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CC-eEEEEECCCcccHHHHHHHHHHHH
Confidence            33 688999999999999999988865

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.36  E-value=2.3e-05  Score=60.49  Aligned_cols=109  Identities=17%  Similarity=0.172  Sum_probs=73.8

Q ss_pred             CeEEEEEEEeCCCCccccc-------cCcccccCccEEEEEEeCCChhh-HHHHHHH-----------------------
Q 030337           33 GSTVNLGLWDTAGQEDYNR-------LRPLSYRGADVFILAFSLISKAS-YENVAKK-----------------------   81 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~~~~i~v~d~~~~~s-~~~~~~~-----------------------   81 (179)
                      .+..++||.|+||.-.-.+       ..-...++||.+++|.|+..+.+ .+-+..+                       
T Consensus       107 Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~g  186 (365)
T COG1163         107 YKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESG  186 (365)
T ss_pred             ecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccC
Confidence            3448899999998532222       23456899999999999997665 3222111                       


Q ss_pred             --------------------HHH----------------------HHhhcCCCCcEEEEEeCCCcccccccccCCCCCcc
Q 030337           82 --------------------WIP----------------------ELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVP  119 (179)
Q Consensus        82 --------------------~~~----------------------~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~  119 (179)
                                          .++                      .+.....-+|-+.|.||.|+               
T Consensus       187 GI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~---------------  251 (365)
T COG1163         187 GIRINGTGPLTHLDEDTVRAILREYRIHNADVLIREDVTLDDLIDALEGNRVYKPALYVVNKIDL---------------  251 (365)
T ss_pred             CEEEecccccccCCHHHHHHHHHHhCcccceEEEecCCcHHHHHHHHhhcceeeeeEEEEecccc---------------
Confidence                                111                      11111113788999999998               


Q ss_pred             ccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          120 ITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .+.+....+.+..   ..+.+||+.+.|++++.+.+.+.+
T Consensus       252 ~~~e~~~~l~~~~---~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         252 PGLEELERLARKP---NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             cCHHHHHHHHhcc---ceEEEecccCCCHHHHHHHHHHhh
Confidence            4444555555554   678999999999999999999976

>PRK12739 elongation factor G; Reviewed

Probab=98.36  E-value=1.1e-06  Score=75.51  Aligned_cols=73  Identities=23%  Similarity=0.281  Sum_probs=55.9

Q ss_pred             EEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           28 NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .+.+++  .++.++||||+..|...+...++.+|++++|+|..+...-+..  ..+..+...  +.|++++.||+|+..
T Consensus        67 ~~~~~~--~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~--~i~~~~~~~--~~p~iv~iNK~D~~~  139 (691)
T PRK12739         67 TCFWKG--HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE--TVWRQADKY--GVPRIVFVNKMDRIG  139 (691)
T ss_pred             EEEECC--EEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH--HHHHHHHHc--CCCEEEEEECCCCCC
Confidence            344455  6789999999988877777889999999999999987655443  333344433  689999999999975

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.34  E-value=8.8e-06  Score=58.74  Aligned_cols=108  Identities=18%  Similarity=0.185  Sum_probs=72.5

Q ss_pred             EEEEeCCC----------CccccccCcccccC---ccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           38 LGLWDTAG----------QEDYNRLRPLSYRG---ADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        38 ~~i~D~~G----------~~~~~~~~~~~~~~---~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      +.+.|.||          ++.+..+...|++.   ..+++++.|+-.+..-.+.  +.++.+.+.  .+|+++|.||+|.
T Consensus        72 ~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~--em~~~l~~~--~i~~~vv~tK~DK  147 (200)
T COG0218          72 LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR--EMIEFLLEL--GIPVIVVLTKADK  147 (200)
T ss_pred             EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCeEEEEEcccc
Confidence            77899999          34455555666654   4588899998877665543  445555554  7999999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHhCC---Ce--EEEeccCCCCcHHHHHHHHHHHHh
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLIGS---PA--YIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .....           -.......++.+..   ..  ++..|+..+.|++++...|...+.
T Consensus       148 i~~~~-----------~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         148 LKKSE-----------RNKQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             CChhH-----------HHHHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence            76431           11122333333222   12  677899999999999998887654

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

Probab=98.33  E-value=8.5e-06  Score=68.27  Aligned_cols=115  Identities=16%  Similarity=0.189  Sum_probs=83.4

Q ss_pred             ECCeEEEEEEEeCCCCccccccCc------ccc--cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRP------LSY--RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~------~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      +..+..++++.|.||.-.......      .|+  .++|++|-|.|+++.+.-=.+    --++.+.  +.|++++.|++
T Consensus        45 ~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyl----tlQLlE~--g~p~ilaLNm~  118 (653)
T COG0370          45 LKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYL----TLQLLEL--GIPMILALNMI  118 (653)
T ss_pred             EEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHH----HHHHHHc--CCCeEEEeccH
Confidence            333445699999999755444322      222  457999999999988754333    1233344  78999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                      |......          + .-+.+++.+.+|+ +.+.+||++|.|++++...+.+....+.
T Consensus       119 D~A~~~G----------i-~ID~~~L~~~LGv-PVv~tvA~~g~G~~~l~~~i~~~~~~~~  167 (653)
T COG0370         119 DEAKKRG----------I-RIDIEKLSKLLGV-PVVPTVAKRGEGLEELKRAIIELAESKT  167 (653)
T ss_pred             hhHHhcC----------C-cccHHHHHHHhCC-CEEEEEeecCCCHHHHHHHHHHhccccc
Confidence            9976543          2 2346888999999 8999999999999999999887554433

>TIGR00101 ureG urease accessory protein UreG

Probab=98.32  E-value=1.3e-05  Score=58.54  Aligned_cols=104  Identities=19%  Similarity=0.161  Sum_probs=64.2

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ....+.++.|..--.... ..  -++.+|.|+|+.+..+...   .+..++     ...-++++||+|+.....      
T Consensus        92 ~D~iiIEt~G~~l~~~~~-~~--l~~~~i~vvD~~~~~~~~~---~~~~qi-----~~ad~~~~~k~d~~~~~~------  154 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFS-PE--LADLTIFVIDVAAGDKIPR---KGGPGI-----TRSDLLVINKIDLAPMVG------  154 (199)
T ss_pred             CCEEEEECCCCCcccccc-hh--hhCcEEEEEEcchhhhhhh---hhHhHh-----hhccEEEEEhhhcccccc------
Confidence            345567888843222222 11  2688999999997666432   111122     123488999999974211      


Q ss_pred             CCccccHHHHHHHHHH-hCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          116 GAVPITTAQGEELRKL-IGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                          ...+...+..+. ....+++++||++|.|++++|+++.+.++
T Consensus       155 ----~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       155 ----ADLGVMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             ----ccHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence                223333333333 33358999999999999999999997654

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.31  E-value=6.7e-06  Score=63.41  Aligned_cols=123  Identities=20%  Similarity=0.278  Sum_probs=82.8

Q ss_pred             eeEEEECC---eEEEEEEEeCCCCcc--ccccC----c--cccc-CccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCC
Q 030337           26 SANVVVDG---STVNLGLWDTAGQED--YNRLR----P--LSYR-GADVFILAFSLISKA--SYENVAKKWIPELRHYAP   91 (179)
Q Consensus        26 ~~~~~~~~---~~~~~~i~D~~G~~~--~~~~~----~--~~~~-~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~   91 (179)
                      +|.+.++.   +..++|+.||||.-+  +..+.    .  ..++ -.++++|++|.+...  +.+.- .+++..++....
T Consensus       202 TK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q-~~L~~eIk~~f~  280 (346)
T COG1084         202 TKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQ-ISLLEEIKELFK  280 (346)
T ss_pred             ccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHH-HHHHHHHHHhcC
Confidence            46666653   335899999999532  11110    0  0122 367999999999765  55554 577788887766


Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                       .|+++|.||+|.....            ..+++......-+......+++..+.+++.+-..+......+
T Consensus       281 -~p~v~V~nK~D~~~~e------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~v~~~a~~~  338 (346)
T COG1084         281 -APIVVVINKIDIADEE------------KLEEIEASVLEEGGEEPLKISATKGCGLDKLREEVRKTALEP  338 (346)
T ss_pred             -CCeEEEEecccccchh------------HHHHHHHHHHhhccccccceeeeehhhHHHHHHHHHHHhhch
Confidence             8999999999996532            233444445555554678889999999998888777765543

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.29  E-value=3.8e-06  Score=66.54  Aligned_cols=112  Identities=17%  Similarity=0.184  Sum_probs=73.1

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hHH---HHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SYE---NVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~---~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      +....+.+.|.|+||+.+|-...-.-...||++|+|.|+.+.+   .|.   ...++.  .+.+..+=..++++.||+|.
T Consensus        80 fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~--~La~tlGi~~lIVavNKMD~  157 (428)
T COG5256          80 FETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHA--FLARTLGIKQLIVAVNKMDL  157 (428)
T ss_pred             eecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHH--HHHHhcCCceEEEEEEcccc
Confidence            3445578999999999998887777888999999999999873   110   111111  22222223458999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      .+-+.      .+...-..+...+.+..|.    ..|+.+|+..|.|+.+
T Consensus       158 v~wde------~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         158 VSWDE------ERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             cccCH------HHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            75221      1111122333346666555    2599999999999865

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.25  E-value=2.5e-05  Score=60.66  Aligned_cols=115  Identities=18%  Similarity=0.200  Sum_probs=77.0

Q ss_pred             EEEEEeCCCCccc----cccCccc---ccCccEEEEEEeCCChh---hHHHHHHHHHHHHhhcC---CCCcEEEEEeCCC
Q 030337           37 NLGLWDTAGQEDY----NRLRPLS---YRGADVFILAFSLISKA---SYENVAKKWIPELRHYA---PGVPIILVGTKLD  103 (179)
Q Consensus        37 ~~~i~D~~G~~~~----~~~~~~~---~~~~~~~i~v~d~~~~~---s~~~~~~~~~~~i~~~~---~~~piilv~nK~D  103 (179)
                      .+.+=|+||.-.-    .-+-..|   +..+.+++.|.|++..+   ..++. ..+..++.++.   .+.|.+||+||+|
T Consensus       208 sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~-~~i~~EL~~Y~~~L~~K~~ivv~NKiD  286 (369)
T COG0536         208 SFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDY-QTIRNELEKYSPKLAEKPRIVVLNKID  286 (369)
T ss_pred             cEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHH-HHHHHHHHHhhHHhccCceEEEEeccC
Confidence            4778899985432    2233444   45688999999999654   35555 56666777665   3799999999999


Q ss_pred             cccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          104 LRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      +.....          ........+.+..+....+.+||.++.|++++...+.+.+...
T Consensus       287 ~~~~~e----------~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~  335 (369)
T COG0536         287 LPLDEE----------ELEELKKALAEALGWEVFYLISALTREGLDELLRALAELLEET  335 (369)
T ss_pred             CCcCHH----------HHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHHHHHHHHh
Confidence            754321          2223333444444442233399999999999999988877554

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.25  E-value=5.7e-06  Score=63.31  Aligned_cols=127  Identities=16%  Similarity=0.177  Sum_probs=74.7

Q ss_pred             CeEEEEEEEeCCCCccc------------cccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEe
Q 030337           33 GSTVNLGLWDTAGQEDY------------NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGT  100 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~------------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~n  100 (179)
                      ....++.++||||.-.-            .......+.+||.+++|+|++++...-.  ...+..+..+ .++|-++|-|
T Consensus       117 s~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~--p~vl~~l~~y-s~ips~lvmn  193 (379)
T KOG1423|consen  117 SGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH--PRVLHMLEEY-SKIPSILVMN  193 (379)
T ss_pred             cCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC--hHHHHHHHHH-hcCCceeecc
Confidence            34478999999994221            1111234668999999999997433222  2333344333 3689999999


Q ss_pred             CCCcccccccc-----cCCCCCccc-cHHHHHHHHHHh---------C---CCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          101 KLDLRDDKQFF-----IDHPGAVPI-TTAQGEELRKLI---------G---SPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       101 K~D~~~~~~~~-----~~~~~~~~~-~~~~~~~~~~~~---------~---~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      |.|.....+--     ..+.+.... ..+....+....         |   ...++.+||++|+||+++-++|+.++...
T Consensus       194 kid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~g  273 (379)
T KOG1423|consen  194 KIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPG  273 (379)
T ss_pred             chhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCC
Confidence            99997644311     011111111 111111111111         1   12378899999999999999999987643

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.25  E-value=6.2e-06  Score=63.30  Aligned_cols=88  Identities=23%  Similarity=0.135  Sum_probs=59.9

Q ss_pred             cccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC
Q 030337           54 PLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG  133 (179)
Q Consensus        54 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (179)
                      ...++.+|++++|.|+.+|.+..+.  .+.+.+    .+.|+++|.||+|+.+..           .. ....+..+..+
T Consensus        16 ~~~l~~aDvVl~V~Dar~p~~~~~~--~i~~~l----~~kp~IiVlNK~DL~~~~-----------~~-~~~~~~~~~~~   77 (276)
T TIGR03596        16 KEKLKLVDVVIEVLDARIPLSSRNP--MIDEIR----GNKPRLIVLNKADLADPA-----------VT-KQWLKYFEEKG   77 (276)
T ss_pred             HHHHhhCCEEEEEEeCCCCCCCCCh--hHHHHH----CCCCEEEEEEccccCCHH-----------HH-HHHHHHHHHcC
Confidence            4567899999999999887654332  222222    257999999999995321           11 11111223344


Q ss_pred             CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          134 SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       134 ~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      . .++.+||+++.|+.++.+.+.+.+-
T Consensus        78 ~-~vi~iSa~~~~gi~~L~~~i~~~~~  103 (276)
T TIGR03596        78 I-KALAINAKKGKGVKKIIKAAKKLLK  103 (276)
T ss_pred             C-eEEEEECCCcccHHHHHHHHHHHHH
Confidence            4 6899999999999999998887664

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.23  E-value=4.1e-05  Score=58.82  Aligned_cols=97  Identities=18%  Similarity=0.170  Sum_probs=72.1

Q ss_pred             cccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH
Q 030337           48 DYNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE  126 (179)
Q Consensus        48 ~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  126 (179)
                      +-..+.+..+.+++-.++|+.+.+|+ +...+ +.++-.....  ++..+|+.||+|+.++..          ...++..
T Consensus        68 Rkn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~l-dR~Lv~ae~~--gi~pvIvlnK~DL~~~~~----------~~~~~~~  134 (301)
T COG1162          68 RKNVLIRPPVANNDQAIIVVSLVDPDFNTNLL-DRYLVLAEAG--GIEPVIVLNKIDLLDDEE----------AAVKELL  134 (301)
T ss_pred             ccCceeCCcccccceEEEEEeccCCCCCHHHH-HHHHHHHHHc--CCcEEEEEEccccCcchH----------HHHHHHH
Confidence            44556666777899999999999988 55555 6776555544  677888899999986542          1113455


Q ss_pred             HHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          127 ELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       127 ~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ......+. ..+.+|++++.++.++...+...
T Consensus       135 ~~y~~~gy-~v~~~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         135 REYEDIGY-PVLFVSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             HHHHhCCe-eEEEecCcCcccHHHHHHHhcCC
Confidence            56677887 89999999999999999887664

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.21  E-value=2e-06  Score=64.62  Aligned_cols=123  Identities=19%  Similarity=0.109  Sum_probs=60.7

Q ss_pred             EEEEEeCCCCccccccCcccc--------cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccc
Q 030337           37 NLGLWDTAGQEDYNRLRPLSY--------RGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDD  107 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~--------~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~  107 (179)
                      ...|+|||||.++...|...-        ...-+++++.|..-..+.......++-.+.-+. -+.|.|.|.||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            578999999987665554433        456689999998754432222122222222111 27999999999999762


Q ss_pred             cccc------------cCCCCCccccHHHHHHHHHHhCCC-eEEEeccCCCCcHHHHHHHHHHHH
Q 030337          108 KQFF------------IDHPGAVPITTAQGEELRKLIGSP-AYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       108 ~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~-~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ....            .........-.+...++...++.. .++.+|+.++.++.+++..+-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            1000            000000000011222223334555 789999999999999998876643

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.14  E-value=4.4e-05  Score=56.11  Aligned_cols=102  Identities=14%  Similarity=0.031  Sum_probs=61.0

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+-|.+|.|.-.-..   .+.-..+..+.|+|+++.......   ....     ...|.++++||+|+.+...      
T Consensus       103 ~d~IiIEt~G~l~~~~---~~~~~~~~~i~Vvd~~~~d~~~~~---~~~~-----~~~a~iiv~NK~Dl~~~~~------  165 (207)
T TIGR00073       103 IDLLFIENVGNLVCPA---DFDLGEHMRVVLLSVTEGDDKPLK---YPGM-----FKEADLIVINKADLAEAVG------  165 (207)
T ss_pred             CCEEEEecCCCcCCCc---ccccccCeEEEEEecCcccchhhh---hHhH-----HhhCCEEEEEHHHccccch------
Confidence            3567788888311111   111235566778888765432111   1111     1467899999999964321      


Q ss_pred             CCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                          .......+..+..+ ..+++++||++|.|++++|+++.+.
T Consensus       166 ----~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       166 ----FDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             ----hhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence                22233333333332 2479999999999999999999874

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

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.13  E-value=1.4e-05  Score=61.71  Aligned_cols=88  Identities=25%  Similarity=0.179  Sum_probs=59.8

Q ss_pred             cccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC
Q 030337           54 PLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG  133 (179)
Q Consensus        54 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (179)
                      ...+..+|++++|.|+.++.+..+.  .+...+.    +.|+++|.||+|+.+..            ..+....+.+..+
T Consensus        19 ~~~l~~aDvIL~VvDar~p~~~~~~--~l~~~~~----~kp~iiVlNK~DL~~~~------------~~~~~~~~~~~~~   80 (287)
T PRK09563         19 KENLKLVDVVIEVLDARIPLSSENP--MIDKIIG----NKPRLLILNKSDLADPE------------VTKKWIEYFEEQG   80 (287)
T ss_pred             HHHhhhCCEEEEEEECCCCCCCCCh--hHHHHhC----CCCEEEEEEchhcCCHH------------HHHHHHHHHHHcC
Confidence            4567899999999999887654332  2222222    58999999999995311            1111122223335


Q ss_pred             CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          134 SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       134 ~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      . .++.+||+++.|+.++.+.+...+-
T Consensus        81 ~-~vi~vSa~~~~gi~~L~~~l~~~l~  106 (287)
T PRK09563         81 I-KALAINAKKGQGVKKILKAAKKLLK  106 (287)
T ss_pred             C-eEEEEECCCcccHHHHHHHHHHHHH
Confidence            4 6889999999999999988877653

>PRK00007 elongation factor G; Reviewed

Probab=98.08  E-value=1.2e-05  Score=69.30  Aligned_cols=73  Identities=19%  Similarity=0.209  Sum_probs=54.7

Q ss_pred             EEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           28 NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .+.+++  .++.+.||||+..|.......++.+|++++|+|.......+.. .. +..+...  +.|++++.||+|+..
T Consensus        69 ~~~~~~--~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~-~~-~~~~~~~--~~p~iv~vNK~D~~~  141 (693)
T PRK00007         69 TCFWKD--HRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSE-TV-WRQADKY--KVPRIAFVNKMDRTG  141 (693)
T ss_pred             EEEECC--eEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhH-HH-HHHHHHc--CCCEEEEEECCCCCC
Confidence            344454  6899999999988766556678899999999999877655554 33 3344444  689999999999975

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

Probab=98.00  E-value=1.2e-05  Score=53.66  Aligned_cols=99  Identities=21%  Similarity=0.150  Sum_probs=71.8

Q ss_pred             EEeCCCCc----cccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           40 LWDTAGQE----DYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        40 i~D~~G~~----~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..||||.-    ++.+-......+++++++|-.+++++|.=.-  -+    ... ...|+|-|.+|.|+.++        
T Consensus        41 ~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~p--~f----~~~-~~k~vIgvVTK~DLaed--------  105 (148)
T COG4917          41 DIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFPP--GF----LDI-GVKKVIGVVTKADLAED--------  105 (148)
T ss_pred             ccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCCc--cc----ccc-cccceEEEEecccccch--------
Confidence            57899842    2222223346789999999999998643211  11    111 14679999999999752        


Q ss_pred             CCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                          ...+..++|..+-|..+++++|+.+..|++++++.|..
T Consensus       106 ----~dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917         106 ----ADISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             ----HhHHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence                45567788888889888999999999999999998865

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.00  E-value=9.4e-05  Score=58.13  Aligned_cols=106  Identities=14%  Similarity=0.151  Sum_probs=65.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      .+.+.|.||+|...-..   .....+|.++++.+.......+...    ..+-    ...-++|.||+|+.....     
T Consensus       148 g~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k----~gi~----E~aDIiVVNKaDl~~~~~-----  211 (332)
T PRK09435        148 GYDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIK----KGIM----ELADLIVINKADGDNKTA-----  211 (332)
T ss_pred             CCCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHH----hhhh----hhhheEEeehhcccchhH-----
Confidence            36788999999753221   2467799999997655555555441    1111    123489999999865321     


Q ss_pred             CCCccccHHHHHHHHHHh------CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          115 PGAVPITTAQGEELRKLI------GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~------~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                         ......+........      ..++++.+||+++.|++++++.+.+.+
T Consensus       212 ---a~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~  259 (332)
T PRK09435        212 ---ARRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHR  259 (332)
T ss_pred             ---HHHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence               000111112222111      114789999999999999999998864

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.99  E-value=3.6e-05  Score=61.60  Aligned_cols=76  Identities=20%  Similarity=0.240  Sum_probs=58.8

Q ss_pred             eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..++++.....++|.||||+++|..-+-..+.-+|.+++|.|+...-.-+-+  .+++-.+-  .++||+=..||.|...
T Consensus        72 SVMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~--KLfeVcrl--R~iPI~TFiNKlDR~~  147 (528)
T COG4108          72 SVMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL--KLFEVCRL--RDIPIFTFINKLDREG  147 (528)
T ss_pred             eEEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHH--HHHHHHhh--cCCceEEEeecccccc
Confidence            4466777779999999999999988777778889999999999876544443  23332222  3899999999999865

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=97.94  E-value=1.8e-05  Score=66.24  Aligned_cols=70  Identities=20%  Similarity=0.295  Sum_probs=57.7

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +++.+-++|.||||+-.|.......++-+|++++|+|+.+.-.++--  ..++..-+  ++.|+++|.||.|+.
T Consensus       193 ~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntE--r~ikhaiq--~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  193 KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTE--RIIKHAIQ--NRLPIVVVINKVDRL  262 (971)
T ss_pred             cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHH--HHHHHHHh--ccCcEEEEEehhHHH
Confidence            56789999999999999998888899999999999999988877653  33322222  379999999999985

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.91  E-value=2.5e-05  Score=60.28  Aligned_cols=118  Identities=19%  Similarity=0.157  Sum_probs=78.9

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      -++.+.|.||+|-.-....+-..-.|++++|.....+..--...+++. .+.-. .-..+++|.||+|+....+      
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~-AleIi-gik~iiIvQNKIDlV~~E~------  157 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLM-ALEII-GIKNIIIVQNKIDLVSRER------  157 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHH-HHhhh-ccceEEEEecccceecHHH------
Confidence            468899999999765544444555789999999997652222212221 22211 1356999999999965332      


Q ss_pred             CCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          116 GAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                        --.+.+++++|.+.-  .-.+++.+||..+.||+-+++.+.+.+-.+.
T Consensus       158 --AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~  205 (415)
T COG5257         158 --ALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPE  205 (415)
T ss_pred             --HHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCc
Confidence              112445556665542  2237999999999999999999999886543

>PRK09602 translation-associated GTPase; Reviewed

Probab=97.91  E-value=0.00011  Score=59.28  Aligned_cols=53  Identities=15%  Similarity=0.230  Sum_probs=36.3

Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH-HHHHHHHHH
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA-VFDAAIKVV  159 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~-~f~~l~~~i  159 (179)
                      ..|+++|.||.|....+              .....+.+. +...++.+||+.+.++.+ +.+.+++.+
T Consensus       217 ~KPvI~VlNK~D~~~~~--------------~~l~~i~~~-~~~~vvpISA~~e~~l~~~l~~~i~~~l  270 (396)
T PRK09602        217 SKPMVIAANKADLPPAE--------------ENIERLKEE-KYYIVVPTSAEAELALRRAAKAGLIDYI  270 (396)
T ss_pred             CCCEEEEEEchhcccch--------------HHHHHHHhc-CCCcEEEEcchhhhhHHHHHHHhHHhhC
Confidence            48999999999974311              112222222 445789999999999999 566666654

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.90  E-value=5.4e-05  Score=43.48  Aligned_cols=44  Identities=25%  Similarity=0.367  Sum_probs=30.7

Q ss_pred             CccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCcEEEEEeCCC
Q 030337           59 GADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVPIILVGTKLD  103 (179)
Q Consensus        59 ~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~piilv~nK~D  103 (179)
                      -.++++|++|++...  +.++- ..++..++...++.|+++|.||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q-~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQ-LSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHH-HHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHH-HHHHHHHHHHcCCCCEEEEEeccC
Confidence            467999999999876  55544 567888888888999999999998

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=97.88  E-value=0.0002  Score=54.25  Aligned_cols=123  Identities=18%  Similarity=0.131  Sum_probs=67.9

Q ss_pred             EEEEEEEeCCCCc-cccccCcc-----cc--cCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCC
Q 030337           35 TVNLGLWDTAGQE-DYNRLRPL-----SY--RGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLD  103 (179)
Q Consensus        35 ~~~~~i~D~~G~~-~~~~~~~~-----~~--~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D  103 (179)
                      .....|.|||||- -|.+-...     .+  ....++++++|...   |.+|=.-+-+-...+.+.  ..|+++|.||+|
T Consensus       115 ~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilykt--klp~ivvfNK~D  192 (366)
T KOG1532|consen  115 EFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKT--KLPFIVVFNKTD  192 (366)
T ss_pred             ccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhc--cCCeEEEEeccc
Confidence            3557789999984 33322111     12  23457777777653   344432212222333333  799999999999


Q ss_pred             cccccccc---------------cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          104 LRDDKQFF---------------IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       104 ~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +.....-.               ........+.......+-+.+.....+-+||.+|.|.++.|..+-..+
T Consensus       193 v~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~v  263 (366)
T KOG1532|consen  193 VSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESV  263 (366)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHH
Confidence            97642100               000000111112222233334334778899999999999998887755

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.88  E-value=0.00011  Score=58.77  Aligned_cols=109  Identities=17%  Similarity=0.158  Sum_probs=77.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ...+.+.|++|++++-+..-.-+...|.+++|++.++.   .+-+.+  .   .+ +..+-...++|.+|+|..++.+  
T Consensus        49 d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL--~---iL-dllgi~~giivltk~D~~d~~r--  120 (447)
T COG3276          49 DGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHL--L---IL-DLLGIKNGIIVLTKADRVDEAR--  120 (447)
T ss_pred             CCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHH--H---HH-HhcCCCceEEEEeccccccHHH--
Confidence            34899999999999887777778899999999999654   344443  1   22 2222345799999999976432  


Q ss_pred             cCCCCCccccHHHHHHHHHH--hCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          112 IDHPGAVPITTAQGEELRKL--IGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                               -.+..++....  +...+++.+|+++|.||+++-+.|.+..-
T Consensus       121 ---------~e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         121 ---------IEQKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             ---------HHHHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhhh
Confidence                     11222232222  33447899999999999999999999774

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.87  E-value=1.6e-05  Score=69.73  Aligned_cols=68  Identities=15%  Similarity=0.125  Sum_probs=54.1

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      ..+.+++.||||+.+|.......++.+|++|+|+|+.+....+.. ..|. .+...  +.|++++.||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~-~~~~-~~~~~--~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTE-TVLR-QALGE--RIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHH-HHHH-HHHHC--CCCEEEEEECCccc
Confidence            357899999999999988777788999999999999987655543 3343 33332  68999999999997

>PTZ00416 elongation factor 2; Provisional

Probab=97.84  E-value=1.8e-05  Score=69.39  Aligned_cols=67  Identities=13%  Similarity=0.149  Sum_probs=53.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      .+.+.+.||||+.+|.......++.+|++|+|+|+.+....+.. ..| ..+...  +.|++++.||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~-~~~~~~--~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVL-RQALQE--RIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHH-HHHHHc--CCCEEEEEEChhhh
Confidence            57899999999998877777788999999999999986555543 333 344433  58999999999997

>PRK07560 elongation factor EF-2; Reviewed

Probab=97.79  E-value=2.9e-05  Score=67.28  Aligned_cols=71  Identities=18%  Similarity=0.130  Sum_probs=53.8

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      +++.+.+.+.||||+.+|.......++.+|++|+|+|.......+.. ..|.. +.+.  +.|.+++.||+|+..
T Consensus        83 ~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~-~~~~~-~~~~--~~~~iv~iNK~D~~~  153 (731)
T PRK07560         83 EGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTE-TVLRQ-ALRE--RVKPVLFINKVDRLI  153 (731)
T ss_pred             cCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHH-HHHHH-HHHc--CCCeEEEEECchhhc
Confidence            55578899999999999877777788999999999999876544433 33432 2222  467899999999863

>COG3596 Predicted GTPase [General function prediction only]

Probab=97.78  E-value=8.2e-05  Score=56.29  Aligned_cols=123  Identities=18%  Similarity=0.214  Sum_probs=80.0

Q ss_pred             EEEEEEeCCCCcc-------ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQED-------YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~-------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      -.+.|||+||-++       ++.....++...|.++++.+..|+.=--+  .+++..+.....+.|++++.|.+|....-
T Consensus        87 ~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d--~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~  164 (296)
T COG3596          87 ENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTD--EDFLRDVIILGLDKRVLFVVTQADRAEPG  164 (296)
T ss_pred             cceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCC--HHHHHHHHHhccCceeEEEEehhhhhccc
Confidence            4589999999765       55556678889999999999999872222  23444554444458999999999996431


Q ss_pred             ---ccccCC--CCCccccHHHHHHHHHHh-CCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          109 ---QFFIDH--PGAVPITTAQGEELRKLI-GSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       109 ---~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                         ......  +..++...++++...+.. ...+++..|...+.|++.+...+++.+-
T Consensus       165 ~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         165 REWDSAGHQPSPAIKQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             cccccccCCCCHHHHHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence               110000  111111223333322221 2446788888999999999999999764

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=97.78  E-value=0.0001  Score=60.01  Aligned_cols=118  Identities=15%  Similarity=0.089  Sum_probs=80.0

Q ss_pred             eEEEEEEEeCCCCcccc----ccC-----cccccCccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           34 STVNLGLWDTAGQEDYN----RLR-----PLSYRGADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~----~~~-----~~~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      +-.+.++.||||.-+-.    ...     ....+-..+++|+.|++...  |...- ..++..|+....+.|+|+|.||+
T Consensus       213 kYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~Q-vkLfhsIKpLFaNK~~IlvlNK~  291 (620)
T KOG1490|consen  213 KYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQ-VKLYHSIKPLFANKVTILVLNKI  291 (620)
T ss_pred             heeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHH-HHHHHHhHHHhcCCceEEEeecc
Confidence            34578888999953211    100     11223355899999999876  44443 46777888877899999999999


Q ss_pred             CcccccccccCCCCCccccHHHH--HHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQG--EELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      |+.....          ++.+..  .+....-+..+++++|+.+..||-++-...+..++..
T Consensus       292 D~m~~ed----------L~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa~  343 (620)
T KOG1490|consen  292 DAMRPED----------LDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEALLAA  343 (620)
T ss_pred             cccCccc----------cCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHHHHHH
Confidence            9965332          444433  2333333434899999999999999888888776643

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.76  E-value=0.00075  Score=55.48  Aligned_cols=155  Identities=15%  Similarity=0.222  Sum_probs=95.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC--CeEEEEEEEeCCCCccccccCcccccCc----cEEEEEEeCCChhhH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD--GSTVNLGLWDTAGQEDYNRLRPLSYRGA----DVFILAFSLISKASY   75 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~----~~~i~v~d~~~~~s~   75 (179)
                      .|+.++. +  .+++.++.|-.|. -.+.-+  ....++.+|-.+|...+..+....+...    -.+|+|.|++.|..+
T Consensus        40 tli~~L~-~--~e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~~  116 (472)
T PF05783_consen   40 TLIARLQ-G--IEDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDLSKPWNI  116 (472)
T ss_pred             HHHHHhh-c--cCCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecCCChHHH
Confidence            3555543 3  2456677775554 222211  2345799999998777776665555432    388999999999655


Q ss_pred             HHHHHHHHHHHhhc-------------------------C----------------------------C----------C
Q 030337           76 ENVAKKWIPELRHY-------------------------A----------------------------P----------G   92 (179)
Q Consensus        76 ~~~~~~~~~~i~~~-------------------------~----------------------------~----------~   92 (179)
                      -+-...|+..+++.                         .                            +          .
T Consensus       117 ~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl~~g~l~~nlG  196 (472)
T PF05783_consen  117 MESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPLGEGVLTENLG  196 (472)
T ss_pred             HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccccccCCCCCcccccccC
Confidence            32223343222111                         0                            0          2


Q ss_pred             CcEEEEEeCCCcccccccc-cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           93 VPIILVGTKLDLRDDKQFF-IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        93 ~piilv~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +|++||.+|+|....-... +-..+....-....+.+|-.+|. ..+.+|++...+++.++..|...+..
T Consensus       197 ipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGA-sL~yts~~~~~n~~~L~~yi~h~l~~  265 (472)
T PF05783_consen  197 IPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGA-SLIYTSVKEEKNLDLLYKYILHRLYG  265 (472)
T ss_pred             cceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCC-eEEEeeccccccHHHHHHHHHHHhcc
Confidence            7999999999985321100 00011111233557788999998 78889999999999999998887764

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 [].

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.75  E-value=0.00014  Score=56.85  Aligned_cols=121  Identities=18%  Similarity=0.277  Sum_probs=76.6

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH-HHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW-IPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~-~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      .+++.++.+.|.||+...-...-.-..-.|..++|.|+.....-+.+ +.+ +..+  .  ....++|.||+|...+++ 
T Consensus        66 q~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtA-EcLiig~~--~--c~klvvvinkid~lpE~q-  139 (522)
T KOG0461|consen   66 QGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTA-ECLIIGEL--L--CKKLVVVINKIDVLPENQ-  139 (522)
T ss_pred             ccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccc-hhhhhhhh--h--ccceEEEEeccccccchh-
Confidence            46778999999999975433222223346788999999876555444 222 2222  1  345788899999877542 


Q ss_pred             ccCCCCCcccc-HHHHHHHHHHh------CCCeEEEeccCCC----CcHHHHHHHHHHHHhCCchh
Q 030337          111 FIDHPGAVPIT-TAQGEELRKLI------GSPAYIECSSKTQ----QNVKAVFDAAIKVVLQPPKQ  165 (179)
Q Consensus       111 ~~~~~~~~~~~-~~~~~~~~~~~------~~~~~~e~Sa~~~----~~i~~~f~~l~~~i~~~~~~  165 (179)
                             |... .+.+..+.+.+      |..+++++||+.|    ++|.++-+.|-.++.++.+-
T Consensus       140 -------r~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~Rd  198 (522)
T KOG0461|consen  140 -------RASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKRD  198 (522)
T ss_pred             -------hhhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCcC
Confidence                   2222 12233333332      3257999999999    77888888888888776543

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=97.74  E-value=6e-05  Score=64.50  Aligned_cols=74  Identities=24%  Similarity=0.334  Sum_probs=59.3

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.+.+ .+.+++.|||||-+|.......++-+|++|+|+|+...-..+.- ..|.. ..++  ++|.+++.||+|+...
T Consensus        70 ~~~~~-~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTE-tv~rq-a~~~--~vp~i~fiNKmDR~~a  143 (697)
T COG0480          70 LFWKG-DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTE-TVWRQ-ADKY--GVPRILFVNKMDRLGA  143 (697)
T ss_pred             EEEcC-ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHH-HHHHH-Hhhc--CCCeEEEEECcccccc
Confidence            33443 58999999999999999988999999999999999987766654 34543 3333  7999999999999653

>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=97.74  E-value=0.00022  Score=47.20  Aligned_cols=68  Identities=24%  Similarity=0.214  Sum_probs=43.3

Q ss_pred             eEEEECCeEEEEEEEeCCCCccccc---------cCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEE
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNR---------LRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIIL   97 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piil   97 (179)
                      ..+.+++..  +.++||||-..-..         .....+..+|++++|+|.+++..- .. ..+++.++   .+.|+++
T Consensus        40 ~~~~~~~~~--~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~~~-~~-~~~~~~l~---~~~~~i~  112 (116)
T PF01926_consen   40 GQFEYNNKK--FILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPITE-DD-KNILRELK---NKKPIIL  112 (116)
T ss_dssp             EEEEETTEE--EEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHSHH-HH-HHHHHHHH---TTSEEEE
T ss_pred             eeeeeceee--EEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCCCH-HH-HHHHHHHh---cCCCEEE
Confidence            344556744  56999999643111         122234889999999998884321 11 34444453   4799999


Q ss_pred             EEeC
Q 030337           98 VGTK  101 (179)
Q Consensus        98 v~nK  101 (179)
                      |.||
T Consensus       113 v~NK  116 (116)
T PF01926_consen  113 VLNK  116 (116)
T ss_dssp             EEES
T ss_pred             EEcC
Confidence            9998

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 ....

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=97.66  E-value=0.00023  Score=57.79  Aligned_cols=129  Identities=25%  Similarity=0.198  Sum_probs=78.7

Q ss_pred             CceeeceeeEEEECCeEEEEEEEeCCCCcc-cccc--------CcccccCccEEEEEEeC--CChhhHHHHHHHHHHHHh
Q 030337           19 PTVFDNFSANVVVDGSTVNLGLWDTAGQED-YNRL--------RPLSYRGADVFILAFSL--ISKASYENVAKKWIPELR   87 (179)
Q Consensus        19 pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~--------~~~~~~~~~~~i~v~d~--~~~~s~~~~~~~~~~~i~   87 (179)
                      -|..|-+...+.++|  +.+.+.||+|... -...        ...-++.+|++++|+|+  ++-++--.+ ...+....
T Consensus       301 GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i-~~~l~~~~  377 (531)
T KOG1191|consen  301 GTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKI-ARILETEG  377 (531)
T ss_pred             CcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHH-HHHHHHhc
Confidence            344567777788888  7788999999644 1111        12236789999999999  333333332 23333332


Q ss_pred             hcC-------CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH--Hh-CCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           88 HYA-------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK--LI-GSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        88 ~~~-------~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .-.       ...|++++.||.|+.....         +... ....+..  .. ......++|+++++++..+.+.+..
T Consensus       378 ~g~~~~~~~~~~~~~i~~~nk~D~~s~~~---------~~~~-~~~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~  447 (531)
T KOG1191|consen  378 VGLVVIVNKMEKQRIILVANKSDLVSKIP---------EMTK-IPVVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLN  447 (531)
T ss_pred             cceEEEeccccccceEEEechhhccCccc---------cccC-CceeccccccCcccceEEEeeechhhhHHHHHHHHHH
Confidence            221       1489999999999976421         0110 0011111  11 1224567999999999999999888


Q ss_pred             HHh
Q 030337          158 VVL  160 (179)
Q Consensus       158 ~i~  160 (179)
                      .+.
T Consensus       448 ~~~  450 (531)
T KOG1191|consen  448 IVE  450 (531)
T ss_pred             HHH
Confidence            664

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=97.62  E-value=0.00012  Score=55.15  Aligned_cols=90  Identities=24%  Similarity=0.349  Sum_probs=62.6

Q ss_pred             CCcccCceeec----------eeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh----------
Q 030337           14 KQDYVPTVFDN----------FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA----------   73 (179)
Q Consensus        14 ~~~~~pt~~~~----------~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~----------   73 (179)
                      ..+|.|+-.+.          +..++.++-  +.++.+|++||..-+..|-+.++++.++|+|...++-.          
T Consensus       172 ~~~Y~Ps~qDiLrcRvlTsGIfet~FqVdk--v~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qN  249 (379)
T KOG0099|consen  172 QADYVPSDQDILRCRVLTSGIFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQN  249 (379)
T ss_pred             ccCCCCcHHHHHHhhhhccceeeEEEeccc--cceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchh
Confidence            36788875432          233343443  78999999999999999999999999999999877431          


Q ss_pred             hHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCccc
Q 030337           74 SYENVAKKWIPELRHYA--PGVPIILVGTKLDLRD  106 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~  106 (179)
                      .+++. -.+++.+..+.  ..+.+||..||.|+..
T Consensus       250 RL~Ea-L~LFksiWnNRwL~tisvIlFLNKqDlla  283 (379)
T KOG0099|consen  250 RLQEA-LNLFKSIWNNRWLRTISVILFLNKQDLLA  283 (379)
T ss_pred             HHHHH-HHHHHHHHhhhHHhhhheeEEecHHHHHH
Confidence            22222 12233333332  4688999999999964

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=97.52  E-value=0.0021  Score=46.67  Aligned_cols=122  Identities=20%  Similarity=0.207  Sum_probs=71.9

Q ss_pred             EECCeEEEEEEEeCCCCccccc--------c---CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCC---CCcE
Q 030337           30 VVDGSTVNLGLWDTAGQEDYNR--------L---RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP---GVPI   95 (179)
Q Consensus        30 ~~~~~~~~~~i~D~~G~~~~~~--------~---~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~pi   95 (179)
                      .+++  ..+.++||||-.....        +   ......++|++++|.++.+ .+-.+  ...++.+++..+   -.++
T Consensus        45 ~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~-~t~~d--~~~l~~l~~~fg~~~~~~~  119 (196)
T cd01852          45 VWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGR-FTEEE--EQAVETLQELFGEKVLDHT  119 (196)
T ss_pred             EECC--eEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCC-cCHHH--HHHHHHHHHHhChHhHhcE
Confidence            3455  5789999999644321        0   1123468999999999987 33332  244555555432   2678


Q ss_pred             EEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEec-----cCCCCcHHHHHHHHHHHHhC
Q 030337           96 ILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS-----SKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        96 ilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~S-----a~~~~~i~~~f~~l~~~i~~  161 (179)
                      ++|.|+.|........    .-........+.+.+..+. .++..+     +..+.++.++++.+-+.+.+
T Consensus       120 ivv~T~~d~l~~~~~~----~~~~~~~~~l~~l~~~c~~-r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         120 IVLFTRGDDLEGGTLE----DYLENSCEALKRLLEKCGG-RYVAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             EEEEECccccCCCcHH----HHHHhccHHHHHHHHHhCC-eEEEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            9999999976532100    0000011344555666554 444433     45678889998888877654

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).

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=97.51  E-value=0.00038  Score=57.56  Aligned_cols=117  Identities=16%  Similarity=0.156  Sum_probs=74.6

Q ss_pred             eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hHH---HHHHHHHHHHhhcCCCCcEEEEEe
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SYE---NVAKKWIPELRHYAPGVPIILVGT  100 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~---~~~~~~~~~i~~~~~~~piilv~n  100 (179)
                      ++..++.....+.|.|+||+..|.+..-.-...||++|+|+|++-.+   .|+   .. .+....++.. +=..++++.|
T Consensus       246 ~~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQt-rEha~llr~L-gi~qlivaiN  323 (603)
T KOG0458|consen  246 KTTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQT-REHALLLRSL-GISQLIVAIN  323 (603)
T ss_pred             eeEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCch-HHHHHHHHHc-CcceEEEEee
Confidence            33445566678999999999999887777888999999999987432   222   11 1222233333 2346899999


Q ss_pred             CCCcccccccccCCCCCccccHHHHHHHH-HHhCC----CeEEEeccCCCCcHHHH
Q 030337          101 KLDLRDDKQFFIDHPGAVPITTAQGEELR-KLIGS----PAYIECSSKTQQNVKAV  151 (179)
Q Consensus       101 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~----~~~~e~Sa~~~~~i~~~  151 (179)
                      |+|+..=.+      .+...-......|. +..|+    ..|+.||+..|+|+.+.
T Consensus       324 KmD~V~Wsq------~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  324 KMDLVSWSQ------DRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             cccccCccH------HHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            999974211      01111122233444 44444    26999999999998755

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.50  E-value=0.0009  Score=52.05  Aligned_cols=104  Identities=18%  Similarity=0.152  Sum_probs=62.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      .+.+.|.||+|.-...   ...+..+|.++++-+..   +-+++ ......+.    ..|.++|.||+|+.....     
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~---~~~el-~~~~~~l~----~~~~ivv~NK~Dl~~~~~-----  189 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPG---TGDDL-QGIKAGLM----EIADIYVVNKADGEGATN-----  189 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCC---ccHHH-HHHHHHHh----hhccEEEEEcccccchhH-----
Confidence            4678899999964211   23566788888875433   33333 22222222    578899999999965321     


Q ss_pred             CCCccccH--H----HHHHHHHH-hCC-CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          115 PGAVPITT--A----QGEELRKL-IGS-PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       115 ~~~~~~~~--~----~~~~~~~~-~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                           ...  .    ....+.+. .++ .+++.+||+++.|++++++++.+..
T Consensus       190 -----~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       190 -----VTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHK  237 (300)
T ss_pred             -----HHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence                 110  0    00111111 121 2589999999999999999998853

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>cd01882 BMS1 Bms1

Probab=97.46  E-value=0.00071  Score=50.42  Aligned_cols=98  Identities=16%  Similarity=0.148  Sum_probs=57.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccccccC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~~  113 (179)
                      ..++.+.||+|.-  ..+ ....+.+|++++|+|.+.....+..  .++..+...  ..| +++|.||+|+.+...    
T Consensus        82 ~~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~~~~~~~--~i~~~l~~~--g~p~vi~VvnK~D~~~~~~----  150 (225)
T cd01882          82 KRRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFGFEMETF--EFLNILQVH--GFPRVMGVLTHLDLFKKNK----  150 (225)
T ss_pred             CceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcCCCHHHH--HHHHHHHHc--CCCeEEEEEeccccCCcHH----
Confidence            4567899999863  122 2346889999999999876544432  344444443  467 456999999964221    


Q ss_pred             CCCCccccHHHHHH-HHH-HhCCCeEEEeccCCCC
Q 030337          114 HPGAVPITTAQGEE-LRK-LIGSPAYIECSSKTQQ  146 (179)
Q Consensus       114 ~~~~~~~~~~~~~~-~~~-~~~~~~~~e~Sa~~~~  146 (179)
                         .........+. +.. .....+++.+||++.-
T Consensus       151 ---~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         151 ---TLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             ---HHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence               00001112222 222 2233489999999873

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.

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.42  E-value=0.00082  Score=50.18  Aligned_cols=123  Identities=16%  Similarity=0.240  Sum_probs=71.5

Q ss_pred             eEEEEEEEeCCCCccccc-c--CcccccCccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           34 STVNLGLWDTAGQEDYNR-L--RPLSYRGADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~-~--~~~~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      .-+.+++||.|||-.+-. .  ....++++.++|+|.|+-+..  ....+ ........+..+++.+=+..+|.|-..+.
T Consensus        73 sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQddy~eala~L-~~~v~raykvNp~in~EVfiHKvDGLsdd  151 (347)
T KOG3887|consen   73 SFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDDYMEALARL-HMTVERAYKVNPNINFEVFIHKVDGLSDD  151 (347)
T ss_pred             hhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHHHHHHHHHH-HHHhhheeecCCCceEEEEEEeccCCchh
Confidence            346799999999975432 2  234689999999999976432  22222 22222223334688888999999987544


Q ss_pred             ccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          109 QFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..   ...++.+......+++ ..|.    ..|+-+|. ..+.|-++|-.+++.++..
T Consensus       152 ~k---ietqrdI~qr~~d~l~-d~gle~v~vsf~LTSI-yDHSIfEAFSkvVQkLipq  204 (347)
T KOG3887|consen  152 FK---IETQRDIHQRTNDELA-DAGLEKVQVSFYLTSI-YDHSIFEAFSKVVQKLIPQ  204 (347)
T ss_pred             hh---hhhHHHHHHHhhHHHH-hhhhccceEEEEEeee-cchHHHHHHHHHHHHHhhh
Confidence            20   0111111111112222 2222    14555554 4678999999988877643

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.39  E-value=0.001  Score=52.74  Aligned_cols=116  Identities=22%  Similarity=0.233  Sum_probs=69.6

Q ss_pred             EEEEEeCCCCcccccc--CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc---
Q 030337           37 NLGLWDTAGQEDYNRL--RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF---  111 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~--~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~---  111 (179)
                      .+.+.||.|+|+|-..  .-..-...|-.++++.++|-.+--.- +++ ..+-..  ..|++++.+|+|+.++....   
T Consensus       202 lVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~tk-EHL-gi~~a~--~lPviVvvTK~D~~~ddr~~~v~  277 (527)
T COG5258         202 LVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMTK-EHL-GIALAM--ELPVIVVVTKIDMVPDDRFQGVV  277 (527)
T ss_pred             EEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhhh-Hhh-hhhhhh--cCCEEEEEEecccCcHHHHHHHH
Confidence            4788999999987552  22345678989999998887644321 221 111112  69999999999998765422   


Q ss_pred             ------cCCCCCcc--c-cHHHH---HHHHHH-hCCCeEEEeccCCCCcHHHHHHHHH
Q 030337          112 ------IDHPGAVP--I-TTAQG---EELRKL-IGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus       112 ------~~~~~~~~--~-~~~~~---~~~~~~-~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                            -.+.++-+  + +...+   ....+. .+..+++.+|+.+|+|++-+.+.+.
T Consensus       278 ~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~  335 (527)
T COG5258         278 EEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFL  335 (527)
T ss_pred             HHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHH
Confidence                  00000000  0 11111   112222 3356899999999999876655543

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=97.19  E-value=0.0042  Score=48.43  Aligned_cols=126  Identities=19%  Similarity=0.239  Sum_probs=81.7

Q ss_pred             eEEEEEEEeCCCCccccccCccccc---Ccc-EEEEEEeCCChhh-HHHHHHHHHHHHhhc-------------------
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYR---GAD-VFILAFSLISKAS-YENVAKKWIPELRHY-------------------   89 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~---~~~-~~i~v~d~~~~~s-~~~~~~~~~~~i~~~-------------------   89 (179)
                      ...++.+|=..|...-..+....+.   -++ .+|++.|+++|.. .+.+ ..|..-++++                   
T Consensus        98 d~tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms~Pw~~lesL-qkWa~Vl~ehidkl~i~~ee~ka~rqk~~  176 (473)
T KOG3905|consen   98 DLTRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMSNPWTLLESL-QKWASVLREHIDKLKIPPEEMKAGRQKLE  176 (473)
T ss_pred             hhhhcceEEecCchhhhhHHhhcccccCccceEEEEEEecCCcHHHHHHH-HHHHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            3467888987776544443332222   233 7888999999953 3444 6665443322                   


Q ss_pred             ------C-------------------------------------CCCcEEEEEeCCCccccccc-ccCCCCCccccHHHH
Q 030337           90 ------A-------------------------------------PGVPIILVGTKLDLRDDKQF-FIDHPGAVPITTAQG  125 (179)
Q Consensus        90 ------~-------------------------------------~~~piilv~nK~D~~~~~~~-~~~~~~~~~~~~~~~  125 (179)
                            .                                     -.+|+++|.+|+|...--.. ..-+.+....-....
T Consensus       177 k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~l  256 (473)
T KOG3905|consen  177 KDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHL  256 (473)
T ss_pred             HHHHHhcCccccCCCCcccccccccCccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHH
Confidence                  0                                     03899999999998321000 001111122334567


Q ss_pred             HHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          126 EELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       126 ~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +.||..+|. ..+.+|++...|++-++..|+..++.
T Consensus       257 RkFCLr~Ga-aLiyTSvKE~KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  257 RKFCLRYGA-ALIYTSVKETKNIDLLYKYIVHRSYG  291 (473)
T ss_pred             HHHHHHcCc-eeEEeecccccchHHHHHHHHHHhcC
Confidence            889999998 89999999999999999999987754

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.08  E-value=0.00015  Score=53.74  Aligned_cols=147  Identities=20%  Similarity=0.251  Sum_probs=91.4

Q ss_pred             CCcccCceeeceeeEEE--------ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh----------hH
Q 030337           14 KQDYVPTVFDNFSANVV--------VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA----------SY   75 (179)
Q Consensus        14 ~~~~~pt~~~~~~~~~~--------~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~----------s~   75 (179)
                      .+.|.||-.+-...++.        ++-..+.+.+.|++|+...+..|-..+.++..+++++.++.-+          ..
T Consensus       169 ~~~ylPTqQDvLRvRvPTTGi~eypfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRM  248 (359)
T KOG0085|consen  169 TPGYLPTQQDVLRVRVPTTGIIEYPFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRM  248 (359)
T ss_pred             CcccCcchhhhheeecCcccceecCcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhH
Confidence            56777876544433222        2335678999999999988888989999988888887766432          22


Q ss_pred             HHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccc-------cCCCCCccccHHHHHHHHHH----hCC-----CeE
Q 030337           76 ENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFF-------IDHPGAVPITTAQGEELRKL----IGS-----PAY  137 (179)
Q Consensus        76 ~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~----~~~-----~~~  137 (179)
                      ++. ..++..|-.+.  .+.+||+..||.|+.++...-       +.-.+. +.....++++...    ++-     ..-
T Consensus       249 eES-kALFrTIi~yPWF~nssVIlFLNKkDlLEekI~ySHl~~YFPe~~GP-~qDa~AAreFILkm~~d~nPd~dKii~S  326 (359)
T KOG0085|consen  249 EES-KALFRTIITYPWFQNSSVILFLNKKDLLEEKILYSHLADYFPEFDGP-KQDAQAAREFILKMYVDMNPDSDKIIYS  326 (359)
T ss_pred             HHH-HHHHHHHhccccccCCceEEEechhhhhhhhhhHHHHHHhCcccCCC-cccHHHHHHHHHHHHHhhCCCccceeee
Confidence            222 22333333322  589999999999998754210       000000 1233445554333    111     112


Q ss_pred             EEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          138 IECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       138 ~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..++|.+..||.-+|..+-+.+++.
T Consensus       327 HfTcATDT~NIRfVFaaVkDtiLq~  351 (359)
T KOG0085|consen  327 HFTCATDTENIRFVFAAVKDTILQL  351 (359)
T ss_pred             eeeecccchhHHHHHHHHHHHHHHh
Confidence            4578899999999999998887753

>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=97.01  E-value=0.00092  Score=47.05  Aligned_cols=63  Identities=22%  Similarity=0.152  Sum_probs=44.6

Q ss_pred             EEEEEeCCCCcc----ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           37 NLGLWDTAGQED----YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G~~~----~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      .+.|.||||-..    ....+..+++.+|++|+|.+.++..+-.+. ..|.......  ...+++|.||+
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~-~~l~~~~~~~--~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDM-EFLKQMLDPD--KSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHH-HHHHHHHTTT--CSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHH-HHHHHHhcCC--CCeEEEEEcCC
Confidence            489999999643    224566788999999999999987665554 4555555444  33488898984

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 ....

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

Probab=96.90  E-value=0.0061  Score=47.46  Aligned_cols=73  Identities=15%  Similarity=0.109  Sum_probs=43.8

Q ss_pred             ECCeEEEEEEEeCCCCccccccCc-------ccc--cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCC---CCcEEEE
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRP-------LSY--RGADVFILAFSLISKASYENVAKKWIPELRHYAP---GVPIILV   98 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~-------~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv   98 (179)
                      .++  .++.+|||||.........       .++  .+.|++++|.+++... +.......++.++...+   -.++++|
T Consensus        83 ~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R-~~~~DkqlLk~Iqe~FG~~iw~~~IVV  159 (313)
T TIGR00991        83 RAG--FTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYR-VDTLDGQVIRAITDSFGKDIWRKSLVV  159 (313)
T ss_pred             ECC--eEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCccc-CCHHHHHHHHHHHHHhhhhhhccEEEE
Confidence            355  6799999999764322111       111  2699999997665322 21111244555555442   3579999


Q ss_pred             EeCCCccc
Q 030337           99 GTKLDLRD  106 (179)
Q Consensus        99 ~nK~D~~~  106 (179)
                      .|+.|..+
T Consensus       160 fTh~d~~~  167 (313)
T TIGR00991       160 LTHAQFSP  167 (313)
T ss_pred             EECCccCC
Confidence            99999764

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.85  E-value=0.017  Score=46.02  Aligned_cols=111  Identities=14%  Similarity=0.170  Sum_probs=68.7

Q ss_pred             EEEEEeCCCCccccccCccccc--CccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc---
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYR--GADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF---  111 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~---  111 (179)
                      -+.+.|.+|+.+|....-.-+.  ..|..++|+++.......-  .+-+..+...  ++|++++.+|+|+.......   
T Consensus       250 lvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT--rEHLgl~~AL--~iPfFvlvtK~Dl~~~~~~~~tv  325 (591)
T KOG1143|consen  250 LVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT--REHLGLIAAL--NIPFFVLVTKMDLVDRQGLKKTV  325 (591)
T ss_pred             eEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc--HHHHHHHHHh--CCCeEEEEEeeccccchhHHHHH
Confidence            4788999999988765433332  3677888888776543321  1222233333  79999999999998652211   


Q ss_pred             -----------cCCCCCccccHHHHHHHHHHh---CCCeEEEeccCCCCcHHHH
Q 030337          112 -----------IDHPGAVPITTAQGEELRKLI---GSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus       112 -----------~~~~~~~~~~~~~~~~~~~~~---~~~~~~e~Sa~~~~~i~~~  151 (179)
                                 +.....+..+..++...+++.   ++.+++.+|+.+|.++.-+
T Consensus       326 ~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll  379 (591)
T KOG1143|consen  326 KDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLL  379 (591)
T ss_pred             HHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHH
Confidence                       122222333445555555543   4457889999999987644

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.78  E-value=0.011  Score=47.96  Aligned_cols=86  Identities=13%  Similarity=0.213  Sum_probs=56.0

Q ss_pred             cc-CccEEEEEE-eCC----ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH
Q 030337           57 YR-GADVFILAF-SLI----SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK  130 (179)
Q Consensus        57 ~~-~~~~~i~v~-d~~----~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (179)
                      +. ++++.|+|. |.+    .++.+......|+..+++.  +.|+++|.||.|-...            .....+.++..
T Consensus       141 I~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~--~kPfiivlN~~dp~~~------------et~~l~~~l~e  206 (492)
T TIGR02836       141 IQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKEL--NKPFIILLNSTHPYHP------------ETEALRQELEE  206 (492)
T ss_pred             HHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHhc--CCCEEEEEECcCCCCc------------hhHHHHHHHHH
Confidence            45 788888888 664    1234444446788888877  8999999999994221            23334456666


Q ss_pred             HhCCCeEEEeccCC--CCcHHHHHHHHHH
Q 030337          131 LIGSPAYIECSSKT--QQNVKAVFDAAIK  157 (179)
Q Consensus       131 ~~~~~~~~e~Sa~~--~~~i~~~f~~l~~  157 (179)
                      .++. +++.+|+.+  ...|..+++.++.
T Consensus       207 ky~v-pvl~v~c~~l~~~DI~~il~~vL~  234 (492)
T TIGR02836       207 KYDV-PVLAMDVESMRESDILSVLEEVLY  234 (492)
T ss_pred             HhCC-ceEEEEHHHcCHHHHHHHHHHHHh
Confidence            6776 566655544  4567777766554

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=96.69  E-value=0.0069  Score=46.64  Aligned_cols=98  Identities=19%  Similarity=0.162  Sum_probs=63.3

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCC
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPG  116 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~  116 (179)
                      ..--.|.||+.+|-...-.-....|+.|+|+.++|-.-.+-. ++.  .+.++..-.-++++.||+|+.++..       
T Consensus        76 hyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTr-EHi--LlarqvGvp~ivvflnK~Dmvdd~e-------  145 (394)
T COG0050          76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTR-EHI--LLARQVGVPYIVVFLNKVDMVDDEE-------  145 (394)
T ss_pred             eEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcch-hhh--hhhhhcCCcEEEEEEecccccCcHH-------
Confidence            455689999998877655666789999999999996533332 222  2223322234888999999976432       


Q ss_pred             CccccHHHHHHHHHHhCCC----eEEEeccCC
Q 030337          117 AVPITTAQGEELRKLIGSP----AYIECSSKT  144 (179)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~----~~~e~Sa~~  144 (179)
                      ....-..+.+++...++.+    +++.-||+.
T Consensus       146 llelVemEvreLLs~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         146 LLELVEMEVRELLSEYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCcceeechhhh
Confidence            1112345567788888773    456656554

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.59  E-value=0.0056  Score=43.69  Aligned_cols=44  Identities=16%  Similarity=0.134  Sum_probs=29.0

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           61 DVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        61 ~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      |++++|.|+.+|.+-.+  ..+.+.+.-...+.|+++|.||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~--~~i~~~~~l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC--PQVEEAVLQAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC--HHHHHHHHhccCCCCEEEEEehhhcCC
Confidence            68999999998754332  233333211113689999999999954

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

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=96.57  E-value=0.016  Score=41.30  Aligned_cols=82  Identities=22%  Similarity=0.255  Sum_probs=56.7

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      ..+.+.|.|||+...-  .....+..+|.++++...+ ..+...+ ..+.+.+++.  +.|+.+|.||.|...       
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~-~~~~~~~-~~~~~~l~~~--~~~~~vV~N~~~~~~-------  157 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPT-PSGLHDL-ERAVELVRHF--GIPVGVVINKYDLND-------  157 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCC-cccHHHH-HHHHHHHHHc--CCCEEEEEeCCCCCc-------
Confidence            4578899999975321  2234568899999999987 4455555 5666666654  567899999998643       


Q ss_pred             CCCCccccHHHHHHHHHHhCC
Q 030337          114 HPGAVPITTAQGEELRKLIGS  134 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~  134 (179)
                            ....++.++.+..+.
T Consensus       158 ------~~~~~~~~~~~~~~~  172 (179)
T cd03110         158 ------EIAEEIEDYCEEEGI  172 (179)
T ss_pred             ------chHHHHHHHHHHcCC
Confidence                  223456677777777

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=96.49  E-value=0.011  Score=46.45  Aligned_cols=96  Identities=19%  Similarity=0.130  Sum_probs=62.1

Q ss_pred             EEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCcc
Q 030337           40 LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVP  119 (179)
Q Consensus        40 i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~  119 (179)
                      =.|.||+.+|-...-.-...-|++|+|+..+|..=.+-- +++  .+.++..=..+++..||.|..++..       ...
T Consensus       121 H~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTr-EHl--LLArQVGV~~ivvfiNKvD~V~d~e-------~le  190 (449)
T KOG0460|consen  121 HTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTR-EHL--LLARQVGVKHIVVFINKVDLVDDPE-------MLE  190 (449)
T ss_pred             cCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchH-HHH--HHHHHcCCceEEEEEecccccCCHH-------HHH
Confidence            368999988877555566778999999999996533322 222  2333333345889999999985432       222


Q ss_pred             ccHHHHHHHHHHhCC----CeEEE---eccCCC
Q 030337          120 ITTAQGEELRKLIGS----PAYIE---CSSKTQ  145 (179)
Q Consensus       120 ~~~~~~~~~~~~~~~----~~~~e---~Sa~~~  145 (179)
                      .-.-+++++...+|.    .+++.   .||+.|
T Consensus       191 LVEmE~RElLse~gf~Gd~~PvI~GSAL~ALeg  223 (449)
T KOG0460|consen  191 LVEMEIRELLSEFGFDGDNTPVIRGSALCALEG  223 (449)
T ss_pred             HHHHHHHHHHHHcCCCCCCCCeeecchhhhhcC
Confidence            344567788888876    24555   455566

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.46  E-value=0.009  Score=46.12  Aligned_cols=57  Identities=9%  Similarity=-0.009  Sum_probs=39.9

Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-hCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-IGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ..+-++|.||+|+.....          ...+...+..+. ....+++.+||++|.|++++.+||..+
T Consensus       230 ~~ADIVVLNKiDLl~~~~----------~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLN----------FDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccH----------HHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            467889999999964211          223333333333 334489999999999999999999764

>smart00053 DYNc Dynamin, GTPase

Probab=96.36  E-value=0.0081  Score=45.22  Aligned_cols=68  Identities=24%  Similarity=0.162  Sum_probs=44.4

Q ss_pred             EEEEEEeCCCCccc-------------cccCcccccC-ccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           36 VNLGLWDTAGQEDY-------------NRLRPLSYRG-ADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        36 ~~~~i~D~~G~~~~-------------~~~~~~~~~~-~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      ..+.+.||||-...             ..+...|+++ .+.+++|.|....-+-++. ..+.+.+...  ..|+++|.||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~-l~ia~~ld~~--~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDA-LKLAKEVDPQ--GERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhH-HHHHHHHHHc--CCcEEEEEEC
Confidence            57999999997421             1234556775 4588999987653332222 2333444433  6899999999


Q ss_pred             CCccc
Q 030337          102 LDLRD  106 (179)
Q Consensus       102 ~D~~~  106 (179)
                      .|...
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99975

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.36  E-value=0.0062  Score=51.02  Aligned_cols=70  Identities=20%  Similarity=0.321  Sum_probs=56.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      .++++|.||||+-+|.-.....++--|++|+|.|......-+.. ..|. +++++  ++|-+...||+|.-..+
T Consensus       103 ~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~-tV~r-Q~~ry--~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  103 DYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTE-TVWR-QMKRY--NVPRICFINKMDRMGAS  172 (721)
T ss_pred             cceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhH-HHHH-HHHhc--CCCeEEEEehhhhcCCC
Confidence            57899999999999998888899999999999998876544444 4554 44455  79999999999996543

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=96.27  E-value=0.23  Score=37.75  Aligned_cols=38  Identities=11%  Similarity=0.172  Sum_probs=30.5

Q ss_pred             ccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          120 ITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ++.++...+++..+.   +-+|+....|++.+++.+...+-
T Consensus       251 vs~eevdrlAr~Pns---vViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  251 VSIEEVDRLARQPNS---VVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             ecHHHHHHHhcCCCc---EEEEeccccCHHHHHHHHHHHhc
Confidence            777888888877654   56777888999999999998764

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

Probab=96.25  E-value=0.071  Score=40.41  Aligned_cols=75  Identities=19%  Similarity=0.116  Sum_probs=45.3

Q ss_pred             EECCeEEEEEEEeCCCCccccc---c-------Cccccc--CccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCC---CC
Q 030337           30 VVDGSTVNLGLWDTAGQEDYNR---L-------RPLSYR--GADVFILAFSLISKA-SYENVAKKWIPELRHYAP---GV   93 (179)
Q Consensus        30 ~~~~~~~~~~i~D~~G~~~~~~---~-------~~~~~~--~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~---~~   93 (179)
                      ..++  ..+.+|||||-.....   .       ...++.  ..+++++|..++... +..+  ...++.++...+   -.
T Consensus        75 ~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d--~~llk~I~e~fG~~i~~  150 (249)
T cd01853          75 TVDG--FKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD--LPLLRAITDSFGPSIWR  150 (249)
T ss_pred             EECC--eEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHH--HHHHHHHHHHhChhhHh
Confidence            3455  5789999999754421   0       112332  578888887766432 3332  244555554332   25


Q ss_pred             cEEEEEeCCCccccc
Q 030337           94 PIILVGTKLDLRDDK  108 (179)
Q Consensus        94 piilv~nK~D~~~~~  108 (179)
                      ++++|.||+|.....
T Consensus       151 ~~ivV~T~~d~~~p~  165 (249)
T cd01853         151 NAIVVLTHAASSPPD  165 (249)
T ss_pred             CEEEEEeCCccCCCC
Confidence            799999999997533

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.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=96.22  E-value=0.0081  Score=51.50  Aligned_cols=67  Identities=21%  Similarity=0.303  Sum_probs=52.5

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHH---HHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV---AKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~---~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      +-.+.+.+++.|+||+-+|.+......+-+|++++++|+...-.-+-.   ...|.       .....++|.||+|.
T Consensus        67 ~~~~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~-------~~~~~~lvinkidr  136 (887)
T KOG0467|consen   67 LLHKDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWI-------EGLKPILVINKIDR  136 (887)
T ss_pred             cccCceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHH-------ccCceEEEEehhhh
Confidence            434668999999999999999999999999999999999876544432   22232       24668899999995

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

Probab=96.17  E-value=0.016  Score=41.97  Aligned_cols=103  Identities=14%  Similarity=-0.016  Sum_probs=61.8

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+-+.+.+| .. ..-. ++.=..+.-|+|.|++.-+-.-.   .-.+.+     -..=++|.||.|+.+.-.      
T Consensus        97 ~Dll~iEs~G-NL-~~~~-sp~L~d~~~v~VidvteGe~~P~---K~gP~i-----~~aDllVInK~DLa~~v~------  159 (202)
T COG0378          97 LDLLFIESVG-NL-VCPF-SPDLGDHLRVVVIDVTEGEDIPR---KGGPGI-----FKADLLVINKTDLAPYVG------  159 (202)
T ss_pred             CCEEEEecCc-ce-eccc-CcchhhceEEEEEECCCCCCCcc---cCCCce-----eEeeEEEEehHHhHHHhC------
Confidence            4566777777 21 1111 11112347788888886542210   000111     124578999999976443      


Q ss_pred             CCccccHHHHHHHHHH-hCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKL-IGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                          .+.+...+-++. ..-.+++++|+++|.|+++++.|+....
T Consensus       160 ----~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         160 ----ADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             ----ccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence                444555554444 3334899999999999999999987654

>COG1161 Predicted GTPases [General function prediction only]

Probab=95.88  E-value=0.0081  Score=47.25  Aligned_cols=93  Identities=23%  Similarity=0.188  Sum_probs=59.0

Q ss_pred             CCCCc-cccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCcccc
Q 030337           43 TAGQE-DYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT  121 (179)
Q Consensus        43 ~~G~~-~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~  121 (179)
                      .+|+. .+.......+..+|+++-|.|+-+|.+-..-      .+.+...+.|.++|+||.|+.+..           +.
T Consensus        17 ~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~------~l~~~v~~k~~i~vlNK~DL~~~~-----------~~   79 (322)
T COG1161          17 FPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNP------ELERIVKEKPKLLVLNKADLAPKE-----------VT   79 (322)
T ss_pred             CCCchHHHHHHHHHhcccCCEEEEEEeccccccccCc------cHHHHHccCCcEEEEehhhcCCHH-----------HH
Confidence            46653 4444556678899999999999999865543      222333346669999999996533           33


Q ss_pred             HHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337          122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus       122 ~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ......+.+..+. ..+.++++.+.+...+..
T Consensus        80 ~~W~~~~~~~~~~-~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          80 KKWKKYFKKEEGI-KPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             HHHHHHHHhcCCC-ccEEEEeecccCccchHH
Confidence            3333444444444 467777777766555553

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=95.82  E-value=0.0017  Score=52.07  Aligned_cols=75  Identities=19%  Similarity=0.214  Sum_probs=58.4

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.++=+.+++++.||||+-+|+-..+..++--|+++.|||.+-...-+.+ ..|.. ..++  ++|-....||+|....
T Consensus        95 v~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasagve~qtl-tvwrq-adk~--~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen   95 VNFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTL-TVWRQ-ADKF--KIPAHCFINKMDKLAA  169 (753)
T ss_pred             eecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCccccee-eeehh-cccc--CCchhhhhhhhhhhhh
Confidence            33455668999999999999998888899999999999999876666655 45632 2222  7888999999998653

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=95.58  E-value=0.04  Score=45.44  Aligned_cols=71  Identities=11%  Similarity=0.076  Sum_probs=50.2

Q ss_pred             cccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH---Hh
Q 030337           56 SYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK---LI  132 (179)
Q Consensus        56 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  132 (179)
                      .+..+|++|.++|+-+|--|..-  .+..+++...++...+|+.||.|+.               ..++...|++   ..
T Consensus       171 VlErSDivvqIVDARnPllfr~~--dLe~Yvke~d~~K~~~LLvNKaDLl---------------~~~qr~aWa~YF~~~  233 (562)
T KOG1424|consen  171 VLERSDIVVQIVDARNPLLFRSP--DLEDYVKEVDPSKANVLLVNKADLL---------------PPEQRVAWAEYFRQN  233 (562)
T ss_pred             HHhhcceEEEEeecCCccccCCh--hHHHHHhccccccceEEEEehhhcC---------------CHHHHHHHHHHHHhc
Confidence            46789999999999999766542  4444555554567889999999994               4444454443   44


Q ss_pred             CCCeEEEeccCC
Q 030337          133 GSPAYIECSSKT  144 (179)
Q Consensus       133 ~~~~~~e~Sa~~  144 (179)
                      ++ .++.-||..
T Consensus       234 ni-~~vf~SA~~  244 (562)
T KOG1424|consen  234 NI-PVVFFSALA  244 (562)
T ss_pred             Cc-eEEEEeccc
Confidence            55 788878876

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.25  E-value=0.25  Score=38.32  Aligned_cols=106  Identities=13%  Similarity=0.111  Sum_probs=66.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      .+-+.|.+|.|.-+..   ....+-+|.+++|.=..--+..|.++.-.+        .+.=++|.||.|+.....     
T Consensus       143 G~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~Gim--------EiaDi~vINKaD~~~A~~-----  206 (323)
T COG1703         143 GYDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIM--------EIADIIVINKADRKGAEK-----  206 (323)
T ss_pred             CCCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhh--------hhhheeeEeccChhhHHH-----
Confidence            3557788888753321   134567899999887766667776633222        244578899999755321     


Q ss_pred             CCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          115 PGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                         ..-....+..+..     ....++.+.+||..|.|++++++.+.+..
T Consensus       207 ---a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~  253 (323)
T COG1703         207 ---AARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHR  253 (323)
T ss_pred             ---HHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHH
Confidence               0111112222221     11225789999999999999999988854

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=95.16  E-value=0.18  Score=40.36  Aligned_cols=66  Identities=21%  Similarity=0.235  Sum_probs=38.8

Q ss_pred             EEEEEEeCCCCccccccCcc--cccCccEEEEEEeCCCh---hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPL--SYRGADVFILAFSLISK---ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~--~~~~~~~~i~v~d~~~~---~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      -.+.+.|.+|+|+|-...-.  .-+-.|-..++.-..-.   -+-+.+     ...-.  -++|+.+|.+|+|.++.+
T Consensus       219 KviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIiGmTKEHL-----gLALa--L~VPVfvVVTKIDMCPAN  289 (641)
T KOG0463|consen  219 KVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGIIGMTKEHL-----GLALA--LHVPVFVVVTKIDMCPAN  289 (641)
T ss_pred             eeEEEEeccchhhhhheeeeccccCCCCceEEEecccccceeccHHhh-----hhhhh--hcCcEEEEEEeeccCcHH
Confidence            35889999999998664322  12234555555543311   122222     11111  179999999999998765

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=94.76  E-value=0.089  Score=39.96  Aligned_cols=99  Identities=15%  Similarity=0.163  Sum_probs=57.9

Q ss_pred             EEEEEEeCCC--CccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           36 VNLGLWDTAG--QEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        36 ~~~~i~D~~G--~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      +.+.|.+|.|  |...     ....-+|.+++|.-..--+..|.++.-.+        .++=++|.||+|+.....    
T Consensus       122 ~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~KaGim--------EiaDi~vVNKaD~~gA~~----  184 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKAGIM--------EIADIFVVNKADRPGADR----  184 (266)
T ss_dssp             -SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-TTHH--------HH-SEEEEE--SHHHHHH----
T ss_pred             CCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhhhhh--------hhccEEEEeCCChHHHHH----
Confidence            3455666665  3332     23456888999988776666665522222        134578889999765332    


Q ss_pred             CCCCccccHHHHHHHHHHh------CCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          114 HPGAVPITTAQGEELRKLI------GSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~------~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                             ...+.+......      ..++.+.+||.++.||+++++.+.+.
T Consensus       185 -------~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  185 -------TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             -------HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence                   112222222211      12589999999999999999998874

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>KOG2484 consensus GTPase [General function prediction only]

Probab=94.73  E-value=0.027  Score=45.07  Aligned_cols=56  Identities=16%  Similarity=0.121  Sum_probs=38.3

Q ss_pred             cccccCcccccCccEEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           48 DYNRLRPLSYRGADVFILAFSLISKASYENV-AKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        48 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .|.......+..+|++|.|.|+-||.+-..- .+.|   +....++...|+|.||+|+.+
T Consensus       135 aY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~---V~~~~gnKkLILVLNK~DLVP  191 (435)
T KOG2484|consen  135 AYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEA---VLQAHGNKKLILVLNKIDLVP  191 (435)
T ss_pred             HHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHH---HHhccCCceEEEEeehhccCC
Confidence            3444445567889999999999999744321 1333   323334688999999999943

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=94.69  E-value=0.7  Score=32.95  Aligned_cols=90  Identities=10%  Similarity=0.120  Sum_probs=66.8

Q ss_pred             cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeE
Q 030337           58 RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY  137 (179)
Q Consensus        58 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (179)
                      ..+|-++|++|++...|++.+ +.-+..+....--=.+.++++-....+...          +......+++..+++ ++
T Consensus        63 prIDlIVFvinl~sk~SL~~v-e~SL~~vd~~fflGKVCfl~t~a~~~~~~s----------v~~~~V~kla~~y~~-pl  130 (176)
T PF11111_consen   63 PRIDLIVFVINLHSKYSLQSV-EASLSHVDPSFFLGKVCFLATNAGRESHCS----------VHPNEVRKLAATYNS-PL  130 (176)
T ss_pred             ceeEEEEEEEecCCcccHHHH-HHHHhhCChhhhccceEEEEcCCCcccccc----------cCHHHHHHHHHHhCC-CE
Confidence            358999999999999999998 555555543332234667777766655443          888999999999999 78


Q ss_pred             EEeccCCCCcHHHHHHHHHHHH
Q 030337          138 IECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       138 ~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +.+.-.+..+...+=+.|++.+
T Consensus       131 L~~~le~~~~~~~lAqRLL~~l  152 (176)
T PF11111_consen  131 LFADLENEEGRTSLAQRLLRML  152 (176)
T ss_pred             EEeecccchHHHHHHHHHHHHH
Confidence            8888777777777767766654

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.67  E-value=0.066  Score=42.72  Aligned_cols=67  Identities=22%  Similarity=0.146  Sum_probs=43.4

Q ss_pred             EEEEEeCCCCcccc-----------ccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           37 NLGLWDTAGQEDYN-----------RLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        37 ~~~i~D~~G~~~~~-----------~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      .+.|.||||.-...           ....=+...+|.++++||....+--.+. ...+..++.+  .-.+-||.||+|..
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf-~~vi~aLkG~--EdkiRVVLNKADqV  224 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEF-KRVIDALKGH--EDKIRVVLNKADQV  224 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHH-HHHHHHhhCC--cceeEEEecccccc
Confidence            38899999953211           1122246789999999998876533333 3334455443  45678889999985


Q ss_pred             c
Q 030337          106 D  106 (179)
Q Consensus       106 ~  106 (179)
                      +
T Consensus       225 d  225 (532)
T KOG1954|consen  225 D  225 (532)
T ss_pred             C
Confidence            4

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=94.44  E-value=0.04  Score=42.77  Aligned_cols=112  Identities=18%  Similarity=0.157  Sum_probs=67.4

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCCh----hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccccc
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK----ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI  112 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~  112 (179)
                      .+.+.|.||++-.-.....-..-.|+++++.....+    .+-+.+.  -. ++.+   -..++++.||.|+..++.   
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLa--av-eiM~---LkhiiilQNKiDli~e~~---  196 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLA--AV-EIMK---LKHIIILQNKIDLIKESQ---  196 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHH--HH-HHhh---hceEEEEechhhhhhHHH---
Confidence            477889999975433222222224556666555543    3334331  11 2222   256999999999976542   


Q ss_pred             CCCCCccccHHHHHHHHHHhC--CCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          113 DHPGAVPITTAQGEELRKLIG--SPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                           -....++...|.+.-.  -.+++.+||--++||+-+.+.+++.+-.+
T Consensus       197 -----A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvP  243 (466)
T KOG0466|consen  197 -----ALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP  243 (466)
T ss_pred             -----HHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCC
Confidence                 0112334444444321  13799999999999999999999988544

>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=94.22  E-value=0.24  Score=36.46  Aligned_cols=122  Identities=21%  Similarity=0.200  Sum_probs=65.3

Q ss_pred             EEECCeEEEEEEEeCCCCccccc--------c---CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCC---CCc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNR--------L---RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP---GVP   94 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~--------~---~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~p   94 (179)
                      ..+++  ..+.++||||--....        +   ......+.|++++|..+... +-.+.  ..++.+.+..+   -..
T Consensus        44 ~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r~-t~~~~--~~l~~l~~~FG~~~~k~  118 (212)
T PF04548_consen   44 GEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGRF-TEEDR--EVLELLQEIFGEEIWKH  118 (212)
T ss_dssp             EEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB--SHHHH--HHHHHHHHHHCGGGGGG
T ss_pred             eeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCcc-hHHHH--HHHHHHHHHccHHHHhH
Confidence            35677  5688999999422111        0   01134679999999999833 32222  33334433332   235


Q ss_pred             EEEEEeCCCcccccccccCCCCCcccc---HHHHHHHHHHhCCCeEEEeccC------CCCcHHHHHHHHHHHHhCC
Q 030337           95 IILVGTKLDLRDDKQFFIDHPGAVPIT---TAQGEELRKLIGSPAYIECSSK------TQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        95 iilv~nK~D~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~e~Sa~------~~~~i~~~f~~l~~~i~~~  162 (179)
                      ++||.+..|......      ....+.   ......+.+..+- .|+..+.+      ....+.+++..+-..+.++
T Consensus       119 ~ivvfT~~d~~~~~~------~~~~l~~~~~~~l~~li~~c~~-R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n  188 (212)
T PF04548_consen  119 TIVVFTHADELEDDS------LEDYLKKESNEALQELIEKCGG-RYHVFNNKTKDKEKDESQVSELLEKIEEMVQEN  188 (212)
T ss_dssp             EEEEEEEGGGGTTTT------HHHHHHHHHHHHHHHHHHHTTT-CEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHhhhcccccccc------HHHHHhccCchhHhHHhhhcCC-EEEEEeccccchhhhHHHHHHHHHHHHHHHHHc
Confidence            888888888765331      000011   1234566777776 67776655      2346777777766655443

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 ....

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=94.14  E-value=0.31  Score=39.33  Aligned_cols=83  Identities=18%  Similarity=0.122  Sum_probs=56.0

Q ss_pred             ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCe
Q 030337           57 YRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA  136 (179)
Q Consensus        57 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (179)
                      +-.+|++|=|.|+-||-.-. + .+.-..+++..+...+++|.||+|+.+.+           +.......+.+.+-. -
T Consensus       211 iDSSDVvvqVlDARDPmGTr-c-~~ve~ylkke~phKHli~vLNKvDLVPtw-----------vt~~Wv~~lSkeyPT-i  276 (572)
T KOG2423|consen  211 IDSSDVVVQVLDARDPMGTR-C-KHVEEYLKKEKPHKHLIYVLNKVDLVPTW-----------VTAKWVRHLSKEYPT-I  276 (572)
T ss_pred             hcccceeEEeeeccCCcccc-c-HHHHHHHhhcCCcceeEEEeeccccccHH-----------HHHHHHHHHhhhCcc-e
Confidence            55789999999999986332 1 34445666677788999999999997644           666666777777654 2


Q ss_pred             EEEeccCCCCcHHHHHH
Q 030337          137 YIECSSKTQQNVKAVFD  153 (179)
Q Consensus       137 ~~e~Sa~~~~~i~~~f~  153 (179)
                      -+..|..+..|-..+.+
T Consensus       277 AfHAsi~nsfGKgalI~  293 (572)
T KOG2423|consen  277 AFHASINNSFGKGALIQ  293 (572)
T ss_pred             eeehhhcCccchhHHHH
Confidence            34456555555443333

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=93.97  E-value=0.24  Score=39.76  Aligned_cols=113  Identities=19%  Similarity=0.222  Sum_probs=54.9

Q ss_pred             EEEEEeCCCCccccccC-----cccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc--cccc
Q 030337           37 NLGLWDTAGQEDYNRLR-----PLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR--DDKQ  109 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~-----~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~--~~~~  109 (179)
                      .+.+||.||......-.     ..-+..-|.+|++.+    ..|......+...++++  ..|+.+|-+|.|..  ++..
T Consensus        87 nv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s----~rf~~ndv~La~~i~~~--gK~fyfVRTKvD~Dl~~~~~  160 (376)
T PF05049_consen   87 NVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISS----ERFTENDVQLAKEIQRM--GKKFYFVRTKVDSDLYNERR  160 (376)
T ss_dssp             TEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEES----SS--HHHHHHHHHHHHT--T-EEEEEE--HHHHHHHHHC
T ss_pred             CCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeC----CCCchhhHHHHHHHHHc--CCcEEEEEecccccHhhhhc
Confidence            48899999964322111     123567888888766    23333323556677777  78999999999972  2211


Q ss_pred             cccCCCCCccccH----HHHHHHHHH----hCC--CeEEEeccCCC--CcHHHHHHHHHHHHh
Q 030337          110 FFIDHPGAVPITT----AQGEELRKL----IGS--PAYIECSSKTQ--QNVKAVFDAAIKVVL  160 (179)
Q Consensus       110 ~~~~~~~~~~~~~----~~~~~~~~~----~~~--~~~~e~Sa~~~--~~i~~~f~~l~~~i~  160 (179)
                           ...+..+.    ++.++-+..    .|.  +.++-+|+.+-  .+...+.+.|.+.+-
T Consensus       161 -----~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp  218 (376)
T PF05049_consen  161 -----RKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLP  218 (376)
T ss_dssp             -----C-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-
T ss_pred             -----cCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhH
Confidence                 11112222    222222222    232  46788888874  567777777776553

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.

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.88  E-value=0.18  Score=38.16  Aligned_cols=47  Identities=19%  Similarity=0.476  Sum_probs=34.9

Q ss_pred             ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCC-cEEEEEeCCCccc
Q 030337           57 YRGADVFILAFSLISKASYENVAKKWIPELRHYAPGV-PIILVGTKLDLRD  106 (179)
Q Consensus        57 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~-piilv~nK~D~~~  106 (179)
                      .....++++|||++....+..+ ..|+.--.-.  +. -.+.+|||.|..+
T Consensus        76 a~pl~a~vmvfdlse~s~l~al-qdwl~htdin--sfdillcignkvdrvp  123 (418)
T KOG4273|consen   76 AEPLQAFVMVFDLSEKSGLDAL-QDWLPHTDIN--SFDILLCIGNKVDRVP  123 (418)
T ss_pred             ccceeeEEEEEeccchhhhHHH-Hhhccccccc--cchhheeccccccccc
Confidence            4456799999999999999988 7887633222  22 3568899999865

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=93.48  E-value=0.14  Score=41.24  Aligned_cols=112  Identities=16%  Similarity=0.119  Sum_probs=66.7

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hHHHH---HHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SYENV---AKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~~~---~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      .-++.|.|++|+..|-+..-.-..+||..++|.++-..+   .|+.=   ..+  ..+.+...-...|++.||+|-+..+
T Consensus       156 ~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREh--a~Lakt~gv~~lVv~vNKMddPtvn  233 (501)
T KOG0459|consen  156 NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREH--AMLAKTAGVKHLIVLINKMDDPTVN  233 (501)
T ss_pred             ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHH--HHHHHhhccceEEEEEEeccCCccC
Confidence            357999999999998876666677888888887763221   22110   011  1122222345688999999986422


Q ss_pred             ccccCCCCCccccHHHHHHHHHHhCC-----CeEEEeccCCCCcHHHHH
Q 030337          109 QFFIDHPGAVPITTAQGEELRKLIGS-----PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~e~Sa~~~~~i~~~f  152 (179)
                      =    +.+......+....+....|.     ..|+.+|..+|.++.+--
T Consensus       234 W----s~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  234 W----SNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             c----chhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            0    011111222334445554333     358899999999987654

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=93.41  E-value=0.022  Score=43.56  Aligned_cols=111  Identities=17%  Similarity=0.153  Sum_probs=61.9

Q ss_pred             EEEEEeCCC----------CccccccCcccccCcc---EEEEEEeCCChhhHHHH-HHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           37 NLGLWDTAG----------QEDYNRLRPLSYRGAD---VFILAFSLISKASYENV-AKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G----------~~~~~~~~~~~~~~~~---~~i~v~d~~~~~s~~~~-~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      ...+.|.+|          .+.+..+...|+.+.+   -++++.|++.+..-.+. ...|+.   +  .++|+.+|.||+
T Consensus       184 ~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~g---e--~~VP~t~vfTK~  258 (320)
T KOG2486|consen  184 SWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLG---E--NNVPMTSVFTKC  258 (320)
T ss_pred             eEEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHh---h--cCCCeEEeeehh
Confidence            567789998          2344455556665544   45556666654322222 123432   2  379999999999


Q ss_pred             CcccccccccCCCCCccccHHHH--HHH---HHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQG--EEL---RKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~--~~~---~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      |....-.    +-.+++.....+  ..+   +-... .+++-+|+.++.|++++...+..
T Consensus       259 DK~k~~~----~~~kKp~~~i~~~f~~l~~~~f~~~-~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  259 DKQKKVK----RTGKKPGLNIKINFQGLIRGVFLVD-LPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             hhhhhcc----ccccCccccceeehhhccccceecc-CCceeeecccccCceeeeeehhh
Confidence            9975431    012222221111  111   11111 35778999999999988765543

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=93.29  E-value=0.35  Score=33.02  Aligned_cols=66  Identities=14%  Similarity=0.016  Sum_probs=45.1

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +.+.|+|+++..  .......+..+|.++++.+.+ +.++... ...++.+.......++.+|.|+.+..
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-~~s~~~~-~~~l~~l~~~~~~~~~~lVvN~~~~~  110 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-PTSITDA-YALIKKLAKQLRVLNFRVVVNRAESP  110 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-hhHHHHH-HHHHHHHHHhcCCCCEEEEEeCCCCH
Confidence            668899998753  223345788999999999976 5555554 34455554433456788999999753

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.

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=93.09  E-value=0.14  Score=42.59  Aligned_cols=70  Identities=19%  Similarity=0.250  Sum_probs=51.8

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      ++...-+++.|.||+-+|.+.....++-.|+.++|+|..+.-..+.- ..+...+.+   .+.-+++.||.|..
T Consensus        94 d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTE-TVLrQA~~E---RIkPvlv~NK~DRA  163 (842)
T KOG0469|consen   94 DGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTE-TVLRQAIAE---RIKPVLVMNKMDRA  163 (842)
T ss_pred             CCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechH-HHHHHHHHh---hccceEEeehhhHH
Confidence            34567899999999999999999999999999999999887544322 122222322   34556778999984

>PTZ00258 GTP-binding protein; Provisional

Probab=92.81  E-value=1.2  Score=36.04  Aligned_cols=35  Identities=20%  Similarity=0.120  Sum_probs=24.2

Q ss_pred             EEEEEEeCCCCccccc----cC---cccccCccEEEEEEeCC
Q 030337           36 VNLGLWDTAGQEDYNR----LR---PLSYRGADVFILAFSLI   70 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~----~~---~~~~~~~~~~i~v~d~~   70 (179)
                      .++++.||||...-.+    +.   ...++++|++++|+|..
T Consensus        85 aqi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         85 AQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            3589999999543211    11   22467899999999973

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=92.62  E-value=0.26  Score=37.76  Aligned_cols=95  Identities=19%  Similarity=0.193  Sum_probs=52.4

Q ss_pred             cCccEEEEEEeCCChh-------hHHHHHHHH---HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHH
Q 030337           58 RGADVFILAFSLISKA-------SYENVAKKW---IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE  126 (179)
Q Consensus        58 ~~~~~~i~v~d~~~~~-------s~~~~~~~~---~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  126 (179)
                      ...+|+|+++|+.+.-       .+......+   +..+.... -.+||.||.||+|+...=.        .....-...
T Consensus        24 ~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~~~PVYvv~Tk~D~l~GF~--------ef~~~L~~~   95 (266)
T PF14331_consen   24 QPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGVRLPVYVVFTKCDLLPGFD--------EFFSDLSEE   95 (266)
T ss_pred             CCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCCCCCeEeeeECCCcccCHH--------HHHHhCCHH
Confidence            3479999999988532       223332333   33333333 4899999999999964211        001111123


Q ss_pred             HHHHHhCCCeEEEeccCCCCc---HHHHHHHHHHHHhC
Q 030337          127 ELRKLIGSPAYIECSSKTQQN---VKAVFDAAIKVVLQ  161 (179)
Q Consensus       127 ~~~~~~~~~~~~e~Sa~~~~~---i~~~f~~l~~~i~~  161 (179)
                      ...+.+|. .+-......+..   +.+.|+.++..+..
T Consensus        96 ~r~q~lG~-t~~~~~~~~~~~~~~~~~~~~~l~~~L~~  132 (266)
T PF14331_consen   96 EREQVLGF-TFPYDEDADGDAWAWFDEEFDELVARLNA  132 (266)
T ss_pred             HHhCCccc-ccCCccccccchHHHHHHHHHHHHHHHHH
Confidence            33455665 222222333444   78888888776654

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=92.09  E-value=0.75  Score=39.56  Aligned_cols=67  Identities=16%  Similarity=0.225  Sum_probs=48.0

Q ss_pred             EEEEEeCCCCcc---ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           37 NLGLWDTAGQED---YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        37 ~~~i~D~~G~~~---~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      .+.+.|.||..-   ..+-...+..++|++|+|....+.-+....  +++....+-  .+.|.++.||+|...+
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek--~Ff~~vs~~--KpniFIlnnkwDasas  276 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK--QFFHKVSEE--KPNIFILNNKWDASAS  276 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH--HHHHHhhcc--CCcEEEEechhhhhcc
Confidence            467889999642   333345678899999999998887766654  555555443  4568899999998653

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=91.52  E-value=1.5  Score=33.56  Aligned_cols=78  Identities=24%  Similarity=0.305  Sum_probs=54.6

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.|.|++.---=  -.-..+.++|.+|+|--.| |..++++ ...++..+..  ++|..+|.||.++-          
T Consensus       164 ~~~~IIDsaaG~gC--pVi~sl~~aD~ai~VTEPT-p~glhD~-kr~~el~~~f--~ip~~iViNr~~~g----------  227 (284)
T COG1149         164 ADLLIIDSAAGTGC--PVIASLKGADLAILVTEPT-PFGLHDL-KRALELVEHF--GIPTGIVINRYNLG----------  227 (284)
T ss_pred             cceeEEecCCCCCC--hHHHhhccCCEEEEEecCC-ccchhHH-HHHHHHHHHh--CCceEEEEecCCCC----------
Confidence            35667776532110  0123578999999998776 6677888 6777777777  89999999999652          


Q ss_pred             CCccccHHHHHHHHHHhCCC
Q 030337          116 GAVPITTAQGEELRKLIGSP  135 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~  135 (179)
                          .+  +.++++.+.+++
T Consensus       228 ----~s--~ie~~~~e~gi~  241 (284)
T COG1149         228 ----DS--EIEEYCEEEGIP  241 (284)
T ss_pred             ----ch--HHHHHHHHcCCC
Confidence                22  678888888874

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

Probab=91.24  E-value=3.3  Score=32.02  Aligned_cols=74  Identities=19%  Similarity=0.257  Sum_probs=42.2

Q ss_pred             EEEECCeEEEEEEEeCCCCcc------------------cc--------ccC-cccccCccEEEEEEeCCChh-hHHHHH
Q 030337           28 NVVVDGSTVNLGLWDTAGQED------------------YN--------RLR-PLSYRGADVFILAFSLISKA-SYENVA   79 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~------------------~~--------~~~-~~~~~~~~~~i~v~d~~~~~-s~~~~~   79 (179)
                      .+.-++..+.+.|+||||-..                  |.        ..+ ...=..+|+|+|..+.+... +-.++ 
T Consensus        55 ~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di-  133 (281)
T PF00735_consen   55 ELEENGVKLNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDI-  133 (281)
T ss_dssp             EEEETCEEEEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHH-
T ss_pred             EeccCCcceEEEEEeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHH-
Confidence            344467889999999999211                  00        000 01113589999999987532 22233 


Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           80 KKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        80 ~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                       ..++.+.+   .+++|=|..|+|...
T Consensus       134 -~~mk~Ls~---~vNvIPvIaKaD~lt  156 (281)
T PF00735_consen  134 -EFMKRLSK---RVNVIPVIAKADTLT  156 (281)
T ss_dssp             -HHHHHHTT---TSEEEEEESTGGGS-
T ss_pred             -HHHHHhcc---cccEEeEEecccccC
Confidence             44445544   578888999999954

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.

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.15  E-value=0.73  Score=35.20  Aligned_cols=41  Identities=15%  Similarity=0.174  Sum_probs=25.6

Q ss_pred             EEEEEEEeCCCCccccccCccc--ccCc--cEEEEEEeCCChhhH
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLS--YRGA--DVFILAFSLISKASY   75 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~--~~~~--~~~i~v~d~~~~~s~   75 (179)
                      +=..++|+.+|-.....+..--  .++.  =.+|++.|++++..+
T Consensus        91 kdiaN~WELGgg~~~~~LLsVPit~~~l~~~slIL~LDls~p~~~  135 (363)
T KOG3929|consen   91 KDIANFWELGGGTSLLDLLSVPITGDTLRTFSLILVLDLSKPNDL  135 (363)
T ss_pred             hhHHHHHHhcCCccHHHHhcCcccccchhhhhheeeeecCChHHH
Confidence            3357899999865543333222  2222  267899999998644

>PHA02518 ParA-like protein; Provisional

Probab=88.75  E-value=1.8  Score=31.26  Aligned_cols=67  Identities=15%  Similarity=0.173  Sum_probs=41.1

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVP-IILVGTKLDL  104 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~  104 (179)
                      .+.+.|+|++|..  .......+..+|.+|++...+...  +...+ ..++..+....+..| ..++.|+.+.
T Consensus        76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~-~~~~~~~~~~~~~~~~~~iv~n~~~~  145 (211)
T PHA02518         76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDL-VELIKARQEVTDGLPKFAFIISRAIK  145 (211)
T ss_pred             cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHH-HHHHHHHHhhCCCCceEEEEEeccCC
Confidence            4678999999973  334456778899999998876332  33333 234444433333444 4567777654

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=88.06  E-value=5.5  Score=33.74  Aligned_cols=71  Identities=18%  Similarity=0.329  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEecc--CCCCcHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS--KTQQNVKAV  151 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa--~~~~~i~~~  151 (179)
                      .+.++ .+-++.++++  .+|++|+.||.|...+            ...+..+++|+..|+ ++..+..  +-|.|-.++
T Consensus       357 Gl~NL-~RHIenvr~F--GvPvVVAINKFd~DTe------------~Ei~~I~~~c~e~Gv-~va~~~~~~~Gg~Gai~L  420 (557)
T PRK13505        357 GFANL-ERHIENIRKF--GVPVVVAINKFVTDTD------------AEIAALKELCEELGV-EVALSEVWAKGGEGGVEL  420 (557)
T ss_pred             HHHHH-HHHHHHHHHc--CCCEEEEEeCCCCCCH------------HHHHHHHHHHHHcCC-CEEEecccccCCcchHHH
Confidence            34555 4556667666  8999999999998542            345678899999998 5654332  335677777


Q ss_pred             HHHHHHHHh
Q 030337          152 FDAAIKVVL  160 (179)
Q Consensus       152 f~~l~~~i~  160 (179)
                      -+.+++.+.
T Consensus       421 A~aVveA~~  429 (557)
T PRK13505        421 AEKVVELIE  429 (557)
T ss_pred             HHHHHHHHh
Confidence            777766554

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=87.72  E-value=2.5  Score=32.49  Aligned_cols=94  Identities=14%  Similarity=0.055  Sum_probs=55.9

Q ss_pred             EEEEEEEeCCCCccccccCc------------ccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           35 TVNLGLWDTAGQEDYNRLRP------------LSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~------------~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      .+.+-|.||+|........-            ..-..++..++|.|++-.. .+..+ ..+.    +..  -+--++.||
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~-~~f~----~~~--~~~g~IlTK  226 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQA-KVFN----EAV--GLTGIILTK  226 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHH-HHHH----hhC--CCCEEEEEc
Confidence            36788999999764322110            1112488999999997432 33322 2222    211  234678899


Q ss_pred             CCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .|.....              -.+..++...+. ++..++  +|++++++-
T Consensus       227 lDe~~~~--------------G~~l~~~~~~~~-Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       227 LDGTAKG--------------GIILSIAYELKL-PIKFIG--VGEKIDDLA  260 (272)
T ss_pred             cCCCCCc--------------cHHHHHHHHHCc-CEEEEe--CCCChHhCc
Confidence            9985432              345566666777 677766  787776543

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=87.53  E-value=4.7  Score=30.43  Aligned_cols=62  Identities=21%  Similarity=0.199  Sum_probs=40.6

Q ss_pred             EEEEEeC-CCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           37 NLGLWDT-AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        37 ~~~i~D~-~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      .+-|.|| +|.|.|.   +...+++|.+|+|.|.+. .|+..+ ....+...+. .=.++.+|.||.|-
T Consensus       135 e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~ta-eri~~L~~el-g~k~i~~V~NKv~e  197 (255)
T COG3640         135 EVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTA-ERIKELAEEL-GIKRIFVVLNKVDE  197 (255)
T ss_pred             cEEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHH-HHHHHHHHHh-CCceEEEEEeeccc
Confidence            4567776 4666654   467889999999999773 344333 3333333333 12689999999996

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=87.42  E-value=5.3  Score=30.73  Aligned_cols=44  Identities=11%  Similarity=0.166  Sum_probs=31.1

Q ss_pred             EEEEEEeCCCCcccc----ccC---cccccCccEEEEEEeCCChhhHHHHH
Q 030337           36 VNLGLWDTAGQEDYN----RLR---PLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~----~~~---~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      -++++.|.||.-.-.    ...   -...+.|+.+++|.|+-.|-+-..+.
T Consensus       106 aKiqlldlpgiiegakdgkgrg~qviavartcnli~~vld~~kp~~hk~~i  156 (358)
T KOG1487|consen  106 AKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCNLIFIVLDVLKPLSHKKII  156 (358)
T ss_pred             cceeeecCcchhcccccCCCCccEEEEEeecccEEEEEeeccCcccHHHHH
Confidence            579999999853321    111   23467899999999999887766553

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

Probab=85.67  E-value=12  Score=30.00  Aligned_cols=85  Identities=22%  Similarity=0.248  Sum_probs=48.4

Q ss_pred             cCceeecee-eEEEECCeEEEEEEEeCCCCcc------------------c--------cccCcccc--cCccEEEEEEe
Q 030337           18 VPTVFDNFS-ANVVVDGSTVNLGLWDTAGQED------------------Y--------NRLRPLSY--RGADVFILAFS   68 (179)
Q Consensus        18 ~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~------------------~--------~~~~~~~~--~~~~~~i~v~d   68 (179)
                      .||+..... ..+.-++..+.+.+.||||=-+                  +        ...+...+  ..+|+|+|...
T Consensus        63 ~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~  142 (373)
T COG5019          63 SPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIR  142 (373)
T ss_pred             CcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEec
Confidence            344442222 3344467889999999999211                  1        00111112  24899999998


Q ss_pred             CCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           69 LISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        69 ~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      .+... +--++  ..++.+.+.   +.+|=|..|+|....
T Consensus       143 Ptgh~l~~~DI--e~Mk~ls~~---vNlIPVI~KaD~lT~  177 (373)
T COG5019         143 PTGHGLKPLDI--EAMKRLSKR---VNLIPVIAKADTLTD  177 (373)
T ss_pred             CCCCCCCHHHH--HHHHHHhcc---cCeeeeeeccccCCH
Confidence            77433 33333  455566554   445555699998653

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

Probab=85.35  E-value=13  Score=32.62  Aligned_cols=72  Identities=14%  Similarity=0.110  Sum_probs=46.0

Q ss_pred             ECCeEEEEEEEeCCCCccccc-------c---Cccccc--CccEEEEEEeCCChhhH-HHHHHHHHHHHhhcCC---CCc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNR-------L---RPLSYR--GADVFILAFSLISKASY-ENVAKKWIPELRHYAP---GVP   94 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~-------~---~~~~~~--~~~~~i~v~d~~~~~s~-~~~~~~~~~~i~~~~~---~~p   94 (179)
                      .++  ..+.++||||-.....       +   ...++.  .+|++++|..++..... ++  ..+++.+++.++   -.-
T Consensus       163 idG--~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD--~~aLr~Iq~lFG~~Iwk~  238 (763)
T TIGR00993       163 VQG--VKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSND--LPLLRTITDVLGPSIWFN  238 (763)
T ss_pred             ECC--ceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHH--HHHHHHHHHHhCHHhHcC
Confidence            455  5689999999754321       0   111233  58999999988644332 32  255666666553   256


Q ss_pred             EEEEEeCCCccc
Q 030337           95 IILVGTKLDLRD  106 (179)
Q Consensus        95 iilv~nK~D~~~  106 (179)
                      +|||.|..|..+
T Consensus       239 tIVVFThgD~lp  250 (763)
T TIGR00993       239 AIVTLTHAASAP  250 (763)
T ss_pred             EEEEEeCCccCC
Confidence            899999999875

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.

>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=84.92  E-value=3.3  Score=26.76  Aligned_cols=61  Identities=21%  Similarity=0.123  Sum_probs=40.7

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-C-CCcEEEEEeC
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-P-GVPIILVGTK  101 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~-~~piilv~nK  101 (179)
                      .+.|.|+++....  .....+..+|.++++.+.+ +.+...+ ..+.+.+++.. + ...+.+|.|+
T Consensus        44 D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~s~~~~-~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LPSIRNA-KRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hHHHHHH-HHHHHHHHHcCCCCcCceEEEecC
Confidence            5789999986432  2234678899999988755 5566666 56666666554 2 3567677775

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=84.85  E-value=8.3  Score=30.68  Aligned_cols=101  Identities=16%  Similarity=0.139  Sum_probs=58.0

Q ss_pred             EEEEEEeCCCCccccccC----ccc--ccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQEDYNRLR----PLS--YRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~----~~~--~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~  108 (179)
                      +.+-|.||+|........    ...  .-+.+..++|.|++... ..+.+ ..|.    +..  -+--++.||.|....-
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a-~~f~----~~~--~~~giIlTKlD~~~~~  295 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQA-REFN----EAV--GIDGVILTKVDADAKG  295 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHH-HHHH----hcC--CCCEEEEeeecCCCCc
Confidence            458899999976432211    111  23578889999987543 22222 2222    111  2345678999986432


Q ss_pred             ccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH----HHHHHHHh
Q 030337          109 QFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF----DAAIKVVL  160 (179)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f----~~l~~~i~  160 (179)
                                    -.+..++...+. ++..++  +|++++++.    +++++.++
T Consensus       296 --------------G~~ls~~~~~~~-Pi~~i~--~Gq~v~Dl~~~~~~~~v~~ll  334 (336)
T PRK14974        296 --------------GAALSIAYVIGK-PILFLG--VGQGYDDLIPFDPDWFVDKLL  334 (336)
T ss_pred             --------------cHHHHHHHHHCc-CEEEEe--CCCChhhcccCCHHHHHHHHh
Confidence                          244555566677 676666  788887665    33444443

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=84.80  E-value=4.9  Score=31.65  Aligned_cols=102  Identities=12%  Similarity=0.084  Sum_probs=58.7

Q ss_pred             EEEEEEEeCCCCcccccc--------C---cc-cccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           35 TVNLGLWDTAGQEDYNRL--------R---PL-SYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~--------~---~~-~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      .+.+-|.||+|.......        .   .. .-...+..++|.|++... .+..+ ..+.    +.  -.+--++.||
T Consensus       196 ~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a-~~f~----~~--~~~~giIlTK  268 (318)
T PRK10416        196 GIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQA-KAFH----EA--VGLTGIILTK  268 (318)
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHH-HHHH----hh--CCCCEEEEEC
Confidence            367889999997542221        0   01 113467788999988432 33332 2222    11  1244678899


Q ss_pred             CCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH----HHHHHHHh
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF----DAAIKVVL  160 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f----~~l~~~i~  160 (179)
                      .|....-              -.+..++...+. ++..++  +|++++.+-    +.+++.++
T Consensus       269 lD~t~~~--------------G~~l~~~~~~~~-Pi~~v~--~Gq~~~Dl~~~~~~~~~~~ll  314 (318)
T PRK10416        269 LDGTAKG--------------GVVFAIADELGI-PIKFIG--VGEGIDDLQPFDAEEFVDALL  314 (318)
T ss_pred             CCCCCCc--------------cHHHHHHHHHCC-CEEEEe--CCCChhhCccCCHHHHHHHHh
Confidence            9964322              245566677788 677776  788876553    33444444

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=81.83  E-value=13  Score=25.91  Aligned_cols=64  Identities=11%  Similarity=-0.052  Sum_probs=42.0

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      .+.|+|+++....  .....+..+|.+|++.+.+. .++..+ ..+++.++.. ....+.+|.|+.+..
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~-~~~~~~~~~~-~~~~~~iv~N~~~~~  127 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDA-DRVKGLLEAL-GIKVVGVIVNRVRPD  127 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHH-HHHHHHHHHc-CCceEEEEEeCCccc
Confidence            5889999986432  22345678999999988663 455555 4555555543 223467899999864

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=81.53  E-value=4.3  Score=32.55  Aligned_cols=68  Identities=18%  Similarity=0.222  Sum_probs=52.8

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~  106 (179)
                      .+.+.++|.| +. .......++.++|-+++|.+.+ -.+.... .+++..+++.. +..+..+|.||.+...
T Consensus       217 ~~~~vV~Dlp-~~-~~~~t~~vL~~Sd~iviv~e~s-l~slR~a-k~lld~l~~~r~~~~~p~lv~n~~~~~~  285 (366)
T COG4963         217 SFDFVVVDLP-NI-WTDWTRQVLSGSDEIVIVAEPS-LASLRNA-KELLDELKRLRPNDPKPILVLNRVGVPK  285 (366)
T ss_pred             cCCeEEEcCC-Cc-cchHHHHHHhcCCeEEEEeccc-HHHHHHH-HHHHHHHHHhCCCCCCceEEeeecCCCC
Confidence            4678899999 33 3334467899999999999966 5567766 78888888887 5788889999998754

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=80.54  E-value=4.1  Score=32.31  Aligned_cols=102  Identities=18%  Similarity=0.195  Sum_probs=63.9

Q ss_pred             EEEEEeCCCC---------ccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CC----CcEEEEEeCC
Q 030337           37 NLGLWDTAGQ---------EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PG----VPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G~---------~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~----~piilv~nK~  102 (179)
                      .+-+.||-|=         +.|... ...+..+|.++=|.|++.|..-+.. ..-+.-++... ++    ..++=|-||.
T Consensus       227 ~vlltDTvGFisdLP~~LvaAF~AT-LeeVaeadlllHvvDiShP~ae~q~-e~Vl~vL~~igv~~~pkl~~mieVdnki  304 (410)
T KOG0410|consen  227 FVLLTDTVGFISDLPIQLVAAFQAT-LEEVAEADLLLHVVDISHPNAEEQR-ETVLHVLNQIGVPSEPKLQNMIEVDNKI  304 (410)
T ss_pred             EEEEeechhhhhhCcHHHHHHHHHH-HHHHhhcceEEEEeecCCccHHHHH-HHHHHHHHhcCCCcHHHHhHHHhhcccc
Confidence            4667788882         122221 1236789999999999999865554 33444444432 22    3356678888


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |.....           +..+       .+   ..+-+||++|+|.+++...+-.....
T Consensus       305 D~e~~~-----------~e~E-------~n---~~v~isaltgdgl~el~~a~~~kv~~  342 (410)
T KOG0410|consen  305 DYEEDE-----------VEEE-------KN---LDVGISALTGDGLEELLKAEETKVAS  342 (410)
T ss_pred             cccccc-----------Cccc-------cC---CccccccccCccHHHHHHHHHHHhhh
Confidence            875432           1111       11   14568999999999999887766554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	179
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		6e-80
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		1e-77
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		1e-73
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		1e-65
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		1e-49
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		4e-49
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		5e-49
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		6e-49
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		6e-49
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		6e-49
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		6e-49
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		7e-49
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		7e-49
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		7e-49
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		7e-49
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-48
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-48
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		3e-48
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		3e-48
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		4e-48
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		4e-48
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		4e-48
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		4e-48
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		4e-48
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		5e-48
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		6e-48
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		6e-48
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		6e-48
1mh1_A	186	Small G-Protein Length = 186		7e-48
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		7e-47
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		8e-47
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		8e-47
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		2e-46
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		3e-41
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-38
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		2e-38
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		2e-38
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		2e-38
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		2e-38
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-38
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		2e-38
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-38
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-38
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		2e-38
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		2e-38
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-38
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		2e-38
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		2e-38
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		2e-38
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		2e-38
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-38
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-38
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		3e-38
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		3e-38
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		4e-38
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		5e-38
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		5e-38
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		5e-38
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		6e-38
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		6e-38
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		6e-38
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		6e-38
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		6e-38
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		6e-38
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		6e-38
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		7e-38
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		7e-38
1s1c_A	183	Crystal Structure Of The Complex Between The Human		7e-38
2kb0_A	178	Cdc42(T35a) Length = 178		7e-38
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		8e-38
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		9e-38
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		2e-37
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-37
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		2e-37
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		4e-37
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		5e-37
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		7e-37
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		1e-36
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		2e-34
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		2e-28
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-28
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		6e-25
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		6e-25
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		8e-25
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		4e-22
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		5e-22
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		5e-22
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-16
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		8e-16
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-15
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-15
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-15
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-15
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		1e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-15
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-15
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-15
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		2e-15
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-15
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		2e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		2e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		2e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-15
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-15
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		3e-15
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		4e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		4e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		4e-15
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-15
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		4e-15
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		5e-15
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-15
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		5e-15
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		5e-15
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-15
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		7e-15
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		7e-15
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		7e-15
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		7e-15
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		1e-14
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		1e-14
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		1e-14
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-14
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-14
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		2e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		2e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		2e-14
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-14
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-14
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		2e-14
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-14
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-14
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-14
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		2e-14
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		2e-14
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-14
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		3e-14
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-14
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		5e-14
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		5e-14
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		5e-14
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		5e-14
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		5e-14
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-14
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		5e-14
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		5e-14
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		6e-14
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		8e-14
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		8e-14
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		1e-13
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		1e-13
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-13
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-13
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-13
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		2e-13
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-13
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-13
4fmc_B	171	Espg-Rab1 Complex Length = 171		2e-13
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-13
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		3e-13
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-13
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-13
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		4e-13
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		4e-13
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		4e-13
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		4e-13
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		5e-13
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		8e-13
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-12
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-12
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-12
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-12
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		1e-12
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		1e-12
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		2e-12
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-12
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-12
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		2e-12
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-12
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		3e-12
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-12
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		6e-12
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		7e-12
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		7e-12
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		7e-12
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		8e-12
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		9e-12
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		1e-11
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		1e-11
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-11
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		2e-11
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		3e-11
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		4e-11
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		4e-11
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		4e-11
4fmc_F	117	Espg-Rab1 Complex Length = 117		4e-11
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		4e-11
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		4e-11
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		5e-11
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		6e-11
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		6e-11
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		6e-11
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		6e-11
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		6e-11
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		7e-11
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		7e-11
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		7e-11
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		7e-11
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		8e-11
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		8e-11
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-10
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-10
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-10
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		2e-10
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-10
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-10
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		5e-10
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		6e-10
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		7e-10
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		7e-10
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		9e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-09
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-09
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-09
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-09
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		2e-09
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-09
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		3e-09
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-09
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		4e-09
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		4e-09
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		5e-09
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		6e-09
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		8e-09
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		9e-09
2bku_A	177	Kap95p:rangtp Complex Length = 177		9e-09
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-08
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-08
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-08
1byu_A	216	Canine Gdp-Ran Length = 216		1e-08
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-08
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-08
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-08
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-08
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-08
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-08
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-08
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		2e-08
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		2e-08
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		4e-08
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		9e-08
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-07
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-07
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		1e-07
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-07
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		1e-07
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-07
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		1e-07
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-07
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-07
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-07
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-07
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-07
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		2e-07
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		2e-07
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		3e-07
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		5e-07
3icq_B	171	Karyopherin Nuclear State Length = 171		5e-07
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		6e-07
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		8e-07
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		1e-06
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-06
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-06
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		3e-06
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		3e-06
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		4e-06
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		4e-06
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		4e-06
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		5e-06
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		6e-06
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		7e-06
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		9e-06
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		2e-05
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		2e-05

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score =  292 bits (748), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 141/145 (97%), Positives = 143/145 (98%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDG+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 93
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIGSP
Sbjct: 94  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSP 153
Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
            YIECSSKTQQNVKAVFDAAIKVVL
Sbjct: 154 IYIECSSKTQQNVKAVFDAAIKVVL 178

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score =  284 bits (727), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 133/145 (91%), Positives = 143/145 (98%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY
Sbjct: 36  DYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 95
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITT QGEEL+KLIG+P
Sbjct: 96  ENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAP 155
Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
           AYIECSSK+Q+NVK VFDAAI+VVL
Sbjct: 156 AYIECSSKSQENVKGVFDAAIRVVL 180

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score =  271 bits (693), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 126/145 (86%), Positives = 136/145 (93%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF+LAFSLISKASY
Sbjct: 34  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASY 93
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           EN+ KKW+PEL+HYAPG+PI+LVGTKLDLRDDKQF  DHPGA  ITTAQGEELRK+IG+ 
Sbjct: 94  ENIHKKWLPELKHYAPGIPIVLVGTKLDLRDDKQFLKDHPGAASITTAQGEELRKMIGAV 153
Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
            Y+ECSSKTQQNVKAVFD AI+V L
Sbjct: 154 RYLECSSKTQQNVKAVFDTAIRVAL 178

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score =  244 bits (624), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 117/145 (80%), Positives = 127/145 (87%), Gaps = 2/145 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY+PTVFDNFSANV VDG  VNLGLWDTAGQEDY+RLRPLSYRGAD+F+LAFSLISKASY
Sbjct: 37  DYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASY 96
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           ENV KKW+PELR +AP VPI+LVGTKLDLRDDK +  DH     IT+ QGEELRK IG+ 
Sbjct: 97  ENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTNV--ITSTQGEELRKQIGAA 154
Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
           AYIECSSKTQQNVKAVFD AIKVVL
Sbjct: 155 AYIECSSKTQQNVKAVFDTAIKVVL 179

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score =  191 bits (486), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 97/166 (58%), Positives = 114/166 (68%), Gaps = 6/166 (3%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VD   VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S ASY
Sbjct: 31  EYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASY 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  L K I 
Sbjct: 91  ENVRAKWFPEVRHHCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEID 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
           S  Y+ECS+ TQ+ +K VFD AI+ VL             RACS+L
Sbjct: 151 SVKYLECSALTQRGLKTVFDEAIRAVL----CPQPTRQQKRACSLL 192

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score =  190 bits (482), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score =  189 bits (481), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 50  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 109
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 110 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 169
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 170 AVKYLECSALTQRGLKTVFDEAIRAVL 196

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score =  189 bits (481), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score =  189 bits (481), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score =  189 bits (481), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score =  189 bits (480), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 41  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 100
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 101 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 160
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 161 AVKYLECSALTQRGLKTVFDEAIRAVL 187

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score =  189 bits (480), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 58  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 117
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 118 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 177
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 178 AVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score =  189 bits (480), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score =  189 bits (480), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 38  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 97
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 98  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 157
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 158 AVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score =  189 bits (480), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 91/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 58  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 117
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 118 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 177
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 178 AVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score =  187 bits (476), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/146 (61%), Positives = 109/146 (74%), Gaps = 2/146 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVV 159
           +  Y+ECS+ TQ+ +K VFD AI+ V
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score =  187 bits (476), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 92/147 (62%), Positives = 108/147 (73%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VD   VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S ASY
Sbjct: 38  EYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASY 97
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  L K I 
Sbjct: 98  ENVRAKWFPEVRHHCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEID 157
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           S  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 158 SVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score =  187 bits (475), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 92/147 (62%), Positives = 108/147 (73%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VD   VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S ASY
Sbjct: 37  EYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASY 96
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  L K I 
Sbjct: 97  ENVRAKWFPEVRHHCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEID 156
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           S  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 157 SVKYLECSALTQRGLKTVFDEAIRAVL 183

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score =  187 bits (474), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PI+LVGTKLDLRDDK     +      PIT  QG  + + IG
Sbjct: 91  ENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAMAREIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           S  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 SVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score =  187 bits (474), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 32  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 91
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PI+LVGTKLDLRDDK     +      PIT  QG  + + IG
Sbjct: 92  ENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAMAREIG 151
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           S  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 152 SVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score =  187 bits (474), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 110/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 32  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 91
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PI+LVGTKLDLRDDK     +      PIT  QG  + + IG
Sbjct: 92  ENVRAKWYPEVRHHCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAMAREIG 151
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           S  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 152 SVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score =  187 bits (474), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV ++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score =  186 bits (473), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score =  186 bits (473), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV ++ FSL+S AS+
Sbjct: 35  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF 94
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 95  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 154
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 155 AVKYLECSALTQRGLKTVFDEAIRAVL 181

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 34  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 93
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 94  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 153
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 154 AVKYLECSALTQRGLKTVFDEAIRAVL 180

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 58  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 117
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 118 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 177
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 178 AVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score =  186 bits (472), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV ++ FSL+S AS+
Sbjct: 31  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF 90
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 91  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 150
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 151 AVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score =  186 bits (471), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 90/147 (61%), Positives = 109/147 (74%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV ++ FSL+S AS+
Sbjct: 33  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF 92
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
           ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 93  ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 152
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 153 AVKYLECSALTQRGLKTVFDEAIRAVL 179

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score =  182 bits (463), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 88/147 (59%), Positives = 108/147 (73%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 183 EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 242
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
            +V  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 243 HHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 302
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 303 AVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score =  182 bits (463), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 88/147 (59%), Positives = 108/147 (73%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 183 EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 242
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
            +V  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 243 HHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 302
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 303 AVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score =  182 bits (462), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 88/147 (59%), Positives = 108/147 (73%), Gaps = 2/147 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ FSL+S AS+
Sbjct: 183 EYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF 242
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIG 133
            +V  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K IG
Sbjct: 243 HHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG 302
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVL 160
           +  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 303 AVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 94/166 (56%), Positives = 113/166 (68%), Gaps = 21/166 (12%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSY--------------RG-- 59
           +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY              RG  
Sbjct: 33  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTVGETYGKDITSRGKD 92
Query: 60  ---ADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDH 114
              ADVF++ FSL+S AS+ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +  
Sbjct: 93  KPIADVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKE 152
Query: 115 PGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               PIT  QG  + K IG+  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 153 KKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 198

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score =  164 bits (414), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 75/148 (50%), Positives = 109/148 (73%), Gaps = 2/148 (1%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVFD+++ +V V G    LGL+DTAGQEDY+RLRPLSY   DVF++ FS+++ AS
Sbjct: 45  EEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPAS 104
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           ++NV ++W+PEL+ YAP VP +L+GT++DLRDD +    ++     PI   QG++L K I
Sbjct: 105 FQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEI 164
Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
           G+  Y+ECS+ TQ+ +K VFD AI  +L
Sbjct: 165 GACCYVECSALTQKGLKTVFDEAIIAIL 192

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score =  155 bits (391), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score =  155 bits (391), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score =  155 bits (391), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 20  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 79
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 80  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 139
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 140 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 178

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKLPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 21  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 80
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 81  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 140
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 141 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 179

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 26  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 85
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 86  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 145
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 146 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 184

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 22  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 81
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 82  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 141
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 142 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 180

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 29  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 88
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 89  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 148
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 149 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 187

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 22  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 81
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 82  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 141
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 142 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 180

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 21  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 80
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 81  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 140
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 141 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 179

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score =  154 bits (390), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 26  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 85
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 86  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 145
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 146 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 184

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score =  154 bits (389), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score =  154 bits (389), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 107/159 (67%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 23  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 82
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 83  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 142
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 143 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score =  154 bits (388), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 106/159 (66%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V + G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVXIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score =  154 bits (388), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 75/146 (51%), Positives = 100/146 (68%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A+V VDG  V L LWDTAGQEDY+RLRPLSY  ++V ++ FS+    S E
Sbjct: 39  YVPTVFENYVADVEVDGRRVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLE 98
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           NV +KWI E+ H+  GVPIILVG K+DLR+D Q    +   G  P+T+ +G+ +   IG+
Sbjct: 99  NVQEKWIAEVLHFCQGVPIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGA 158
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y ECS+KT   V+ VF+AA +  L
Sbjct: 159 TGYYECSAKTGYGVREVFEAATRASL 184

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score =  153 bits (387), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 72/143 (50%), Positives = 102/143 (71%), Gaps = 2/143 (1%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y+PT FDNFSA V VDG  V L L DTAGQ+++++LRPL Y   D+F+L FS++S +S+
Sbjct: 48  EYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSF 107
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPITTAQGEELRKLIG 133
           +NV++KW+PE+R + P  PIILVGT+ DLR+D +  I  D     P+     + L + I 
Sbjct: 108 QNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIK 167
Query: 134 SPAYIECSSKTQQNVKAVFDAAI 156
           + +YIECS+ TQ+N+K VFDAAI
Sbjct: 168 AASYIECSALTQKNLKEVFDAAI 190

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score =  153 bits (387), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 74/159 (46%), Positives = 106/159 (66%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLRDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score =  153 bits (387), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 154 FGYMECSAKTKDGVREVFEMATRAAL 179

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score =  153 bits (386), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 154 FGYMECSAKTKDGVREVFEMATRAAL 179

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score =  153 bits (386), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 36  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 95
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 96  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 155
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 156 FGYMECSAKTKDGVREVFEMATRAAL 181

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score =  153 bits (386), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 154 FGYMECSAKTKDGVREVFEMATRAAL 179

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score =  153 bits (386), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 32  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 91
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 92  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 151
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 152 FGYMECSAKTKDGVREVFEMATRAAL 177

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score =  153 bits (386), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 37  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 96
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 97  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 156
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 157 FGYMECSAKTKDGVREVFEMATRAAL 182

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score =  153 bits (386), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 35  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 94
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 95  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 154
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 155 FGYMECSAKTKDGVREVFEMATRAAL 180

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score =  152 bits (385), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 36  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 95
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 96  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 155
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 156 FGYMECSAKTKDGVREVFEMATRAAL 181

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score =  152 bits (385), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 154 FGYMECSAKTKDGVREVFEMATRAAL 179

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score =  152 bits (385), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 35  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 94
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 95  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 154
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 155 FGYMECSAKTKDGVREVFEMATRAAL 180

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score =  152 bits (385), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 32  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 91
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 92  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 151
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 152 FGYMECSAKTKDGVREVFEMATRAAL 177

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score =  152 bits (385), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 36  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 95
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 96  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 155
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 156 FGYMECSAKTKDGVREVFEMATRAAL 181

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score =  152 bits (385), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 106/159 (66%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVP VFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPAVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score =  152 bits (385), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 38  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 97
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 98  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 157
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 158 FGYMECSAKTKDGVREVFEMATRAAL 183

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score =  152 bits (384), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 71/146 (48%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+R RPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRARPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+  A+G ++   IG+
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTARELAKMKQEPVKPAEGRDMANRIGA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 154 FGYMECSAKTKDGVREVFEMATRAAL 179

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score =  151 bits (382), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 106/159 (66%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAG EDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLSYPQTDVF 78
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score =  151 bits (382), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 74/165 (44%), Positives = 103/165 (62%), Gaps = 7/165 (4%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 34  YVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 93
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDK--QFFIDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR D+  +  +      P+ + +G ++   I +
Sbjct: 94  NIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISA 153
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVLXXXXXXXXXXXSHRACSIL 179
             Y+ECS+KT++ V+ VF+ A +  L             R C IL
Sbjct: 154 FGYLECSAKTKEGVREVFEMATRAGL-----QVRKNKRRRGCPIL 193

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score =  151 bits (382), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 106/159 (66%), Gaps = 4/159 (2%)
Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAG EDY+RLRPLSY   DVF
Sbjct: 23  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLSYPQTDVF 82
Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 83  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 142
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L
Sbjct: 143 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score =  150 bits (378), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 70/146 (47%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 54  YVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 113
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR D+     +      P+ + +G ++   I +
Sbjct: 114 NIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISA 173
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT++ V+ VF+ A +  L
Sbjct: 174 FGYLECSAKTKEGVREVFEMATRAGL 199

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score =  150 bits (378), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 70/146 (47%), Positives = 98/146 (67%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 54  YVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 113
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR D+     +      P+ + +G ++   I +
Sbjct: 114 NIPEKWTPEVKHFXPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISA 173
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT++ V+ VF+ A +  L
Sbjct: 174 FGYLECSAKTKEGVREVFEMATRAGL 199

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score =  149 bits (376), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 70/146 (47%), Positives = 97/146 (66%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAG EDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 37  YVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 96
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGS 134
           N+ +KW PE++H+ P VPIILVG K DLR+D+     +      P+   +G ++   IG+
Sbjct: 97  NIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGA 156
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT+  V+ VF+ A +  L
Sbjct: 157 FGYMECSAKTKDGVREVFEMATRAAL 182

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score =  149 bits (375), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 70/146 (47%), Positives = 96/146 (65%), Gaps = 2/146 (1%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV ++ FS+ S  S E
Sbjct: 54  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLE 113
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLIGS 134
           N+ +KW+PE++H+ P VPIILV  K DLR D+    +       P+ T  G  +   I +
Sbjct: 114 NIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQA 173
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVL 160
             Y+ECS+KT++ V+ VF+ A +  L
Sbjct: 174 YDYLECSAKTKEGVREVFETATRAAL 199

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score =  141 bits (355), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 66/148 (44%), Positives = 95/148 (64%), Gaps = 2/148 (1%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PTVF+ +  N+ V G  V+L +WDTAGQ+DY+RLRPL Y  A V +L F + S  S
Sbjct: 61  ESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNS 120
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           ++N+  +W PE+ H+   VPII+VG K DLR DK     +   G  P+T  +G+E+ + +
Sbjct: 121 FDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSV 180
Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
           G+ AY+ECS++   NV AVF  A +V L
Sbjct: 181 GAVAYLECSARLHDNVHAVFQEAAEVAL 208

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score =  121 bits (304), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 90/144 (62%), Gaps = 8/144 (5%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+NFS  +        L LWDTAGQE+Y+RLRPLSY  +DV +L F++ ++ S++
Sbjct: 51  YVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFD 110
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA 136
           N++ KW PE++HY      +LVG K+DLR D        G+  +T  +G++L + +G  A
Sbjct: 111 NISTKWEPEIKHYIDTAKTVLVGLKVDLRKD--------GSDDVTKQEGDDLCQKLGCVA 162
Query: 137 YIECSSKTQQNVKAVFDAAIKVVL 160
           YIE SS  +  +  VF+ ++  + 
Sbjct: 163 YIEASSVAKIGLNEVFEKSVDCIF 186

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score =  121 bits (303), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 59/144 (40%), Positives = 90/144 (62%), Gaps = 8/144 (5%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           YVPTVF+NFS  +        L LWDTAGQE+Y+RLRPLSY  +DV +L F++ ++ S++
Sbjct: 52  YVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFD 111
Query: 77  NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA 136
           N++ KW PE++HY      +LVG K+DLR D        G+  +T  +G++L + +G  A
Sbjct: 112 NISTKWEPEIKHYIDTAKTVLVGLKVDLRKD--------GSDDVTKQEGDDLCQKLGCVA 163
Query: 137 YIECSSKTQQNVKAVFDAAIKVVL 160
           YIE SS  +  +  VF+ ++  + 
Sbjct: 164 YIEASSVAKIGLNEVFEKSVDCIF 187

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score =  110 bits (274), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 88/144 (61%), Gaps = 3/144 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 50  ENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 109
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++V KKW  E++ + P   ++LVG K DLR D    ++  +    P++  QG  + K I
Sbjct: 110 LDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQI 169
Query: 133 GSPAYIECSS-KTQQNVKAVFDAA 155
           G+  YIECS+ +++ +V+ +F  A
Sbjct: 170 GAATYIECSALQSENSVRDIFHVA 193

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score =  109 bits (273), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 88/144 (61%), Gaps = 3/144 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 34  ENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 93
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++V KKW  E++ + P   ++LVG K DLR D    ++  +    P++  QG  + K I
Sbjct: 94  LDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQI 153
Query: 133 GSPAYIECSS-KTQQNVKAVFDAA 155
           G+  YIECS+ +++ +V+ +F  A
Sbjct: 154 GAATYIECSALQSENSVRDIFHVA 177

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score =  109 bits (272), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 88/144 (61%), Gaps = 3/144 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 55  ENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 114
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++V KKW  E++ + P   ++LVG K DLR D    ++  +    P++  QG  + K I
Sbjct: 115 LDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQI 174
Query: 133 GSPAYIECSS-KTQQNVKAVFDAA 155
           G+  YIECS+ +++ +V+ +F  A
Sbjct: 175 GAATYIECSALQSENSVRDIFHVA 198

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score =  100 bits (249), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N++A +  +   V L LWDT+G   Y+ +RPL Y  +D  +L F +    +
Sbjct: 38  ETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPET 97
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++  KKW  E+  Y P   ++L+G K DLR D    ++  H    PI+  QG  + K +
Sbjct: 98  VDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQL 157
Query: 133 GSPAYIECSSKT-QQNVKAVFDAAIKVVL 160
           G+  Y+E S+ T ++++ ++F  A  + L
Sbjct: 158 GAEIYLEGSAFTSEKSIHSIFRTASMLCL 186

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N++A +  +   V L LWDT+G   Y+ +RPL Y  +D  +L F +    +
Sbjct: 54  ETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPET 113
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++  KKW  E+  Y P   ++L+G K DLR D    ++  H    PI+  QG  + K +
Sbjct: 114 VDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQL 173
Query: 133 GSPAYIECSSKT-QQNVKAVFDAAIKVVL 160
           G+  Y+E S+ T ++++ ++F  A  + L
Sbjct: 174 GAEIYLEGSAFTSEKSIHSIFRTASMLCL 202

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N++A +  +   V L LWDT+G   Y+ +RPL Y  +D  +L F +    +
Sbjct: 37  ETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPET 96
Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQGEELRKLI 132
            ++  KKW  E+  Y P   ++L+G K DLR D    ++  H    PI+  QG  + K +
Sbjct: 97  VDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQL 156
Query: 133 GSPAYIECSSKT-QQNVKAVFDAAIKVVL 160
           G+  Y+E S+ T ++++ ++F  A  + L
Sbjct: 157 GAEIYLEGSAFTSEKSIHSIFRTASMLCL 185

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 80.5 bits (197), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/129 (36%), Positives = 70/129 (54%), Gaps = 13/129 (10%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
           FS  + V+ +TV   +WDTAGQE Y+ L P+ YRGA   I+ F + ++AS+E  AKKW+ 
Sbjct: 50  FSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFER-AKKWVQ 108
Query: 85  ELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL+    P + + L G K DL D ++            TA+  +         ++E S+K
Sbjct: 109 ELQAQGNPNMVMALAGNKSDLLDARK-----------VTAEDAQTYAQENGLFFMETSAK 157
Query: 144 TQQNVKAVF 152
           T  NVK +F
Sbjct: 158 TATNVKEIF 166

>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 = 79.7 bits (195), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 84/151 (55%), Gaps = 17/151 (11%)
Query: 4   IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           I +I N+ + K  Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F
Sbjct: 21  IQLIQNHFVDK--YDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGF 78
Query: 64  ILAFSLISKASYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
           +  F++ +  S+E++   ++ I  ++  +  VP++LVG K DL            A  + 
Sbjct: 79  LCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVE 126
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           + Q ++L +  G P YIE S+KT+Q V+  F
Sbjct: 127 SRQAQDLARSYGIP-YIETSAKTRQGVEDAF 156

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 84/151 (55%), Gaps = 17/151 (11%)
Query: 4   IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           I +I N+ + K  Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F
Sbjct: 21  IQLIQNHFVEK--YDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGF 78
Query: 64  ILAFSLISKASYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
           +  F++ +  S+E++   ++ I  ++  +  VP++LVG K DL            A  + 
Sbjct: 79  LCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVE 126
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           + Q ++L +  G P YIE S+KT+Q V+  F
Sbjct: 127 SRQAQDLARSYGIP-YIETSAKTRQGVEDAF 156

>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 = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 73/138 (52%), Gaps = 17/138 (12%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG  V L +WDTAGQE +  LR   YRGAD  +L FS+  + S+EN+   W  E  
Sbjct: 48  DLEVDGRFVTLQIWDTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLG-NWQKEFI 106
Query: 88  HYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           +YA        P +++G K+D ++D+Q          +TT + +      G   Y+E S+
Sbjct: 107 YYADVKDPEHFPFVVLGNKVD-KEDRQ----------VTTEEAQTWCMENGDYPYLETSA 155
Query: 143 KTQQNVKAVFDAAIKVVL 160
           K   NV   F+ A++ VL
Sbjct: 156 KDDTNVTVAFEEAVRQVL 173

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDEYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 36  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 95
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 96  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 143
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 144 IP-YIETSAKTRQGVEDAF 161

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 36  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 95
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 96  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 143
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 144 IP-YIETSAKTRQGVEDAF 161

>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 = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 38  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 97
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 98  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 145
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 146 IP-YIETSAKTRQGVEDAF 163

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG + DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNRCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y P++ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 84/151 (55%), Gaps = 17/151 (11%)
Query: 4   IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           I +I N+ + + D  PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F
Sbjct: 21  IQLIQNHFVDEFD--PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGF 78
Query: 64  ILAFSLISKASYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
           +  F++ +  S+E++   ++ I  ++  +  VP++LVG K DL            A  + 
Sbjct: 79  LCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVE 126
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           + Q ++L +  G P YIE S+KT+Q V+  F
Sbjct: 127 SRQAQDLARSYGIP-YIETSAKTRQGVEDAF 156

>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 = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 46/145 (31%), Positives = 74/145 (51%), Gaps = 12/145 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D+++   V+D     L + DTAGQE++  +R    R  + F+L FS+  + S+
Sbjct: 33  DYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSF 92
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E + K     LR       P+IL+G K DL        DH   V  T  +G++L + +  
Sbjct: 93  EEIYKFQRQILRVKDRDEFPMILIGNKADL--------DHQRQV--TQEEGQQLARQL-K 141
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
             Y+E S+K + NV   F   ++V+
Sbjct: 142 VTYMEASAKIRMNVDQAFHELVRVI 166

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DT GQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTTGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DT GQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTGGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG+E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGKEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ +++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEESYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 84/151 (55%), Gaps = 17/151 (11%)
Query: 4   IYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           I +I N+ + + D  PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F
Sbjct: 21  IQLIQNHFVDECD--PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGF 78
Query: 64  ILAFSLISKASYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
           +  F++ +  S+E++   ++ I  ++  +  VP++LVG K DL            A  + 
Sbjct: 79  LCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKSDL-----------AARTVE 126
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           + Q ++L +  G P YIE S+KT+Q V+  F
Sbjct: 127 SRQAQDLARSYGIP-YIETSAKTRQGVEDAF 156

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 78/139 (56%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y P++ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 37  EYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 96
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 97  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 144
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 145 IP-YIETSAKTRQGVEDAF 162

>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 = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 76.6 bits (187), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTA QE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKXDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTA QE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKXDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG    L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGEICLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>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 = 76.6 bits (187), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL               + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AGRTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 43/138 (31%), Positives = 72/138 (52%), Gaps = 17/138 (12%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG  V + +WDTAGQE +  LR   YRG+D  +L FS+    S++N++  W  E  
Sbjct: 52  DLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLS-NWKKEFI 110
Query: 88  HYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           +YA        P +++G K D+++ +           ++T + +   K  G   Y E S+
Sbjct: 111 YYADVKEPESFPFVILGNKTDIKERQ-----------VSTEEAQAWCKDNGDYPYFETSA 159
Query: 143 KTQQNVKAVFDAAIKVVL 160
           K   NV A F+ A++ +L
Sbjct: 160 KDSTNVAAAFEEAVRRIL 177

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 74/142 (52%), Gaps = 17/142 (11%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAG EDY  +R   +R  + F+L FS+    S
Sbjct: 30  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHES 89
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA--QGEELRK 130
           +   A  ++ I  ++     +P+++VG K DL + +Q        VP+  A  + EE   
Sbjct: 90  FTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQ--------VPVEEARSKAEEW-- 139
Query: 131 LIGSPAYIECSSKTQQNVKAVF 152
                 Y+E S+KT+ NV  VF
Sbjct: 140 ---GVQYVETSAKTRANVDKVF 158

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 74/142 (52%), Gaps = 17/142 (11%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAG EDY  +R   +R  + F+L FS+    S
Sbjct: 34  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHES 93
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA--QGEELRK 130
           +   A  ++ I  ++     +P+++VG K DL + +Q        VP+  A  + EE   
Sbjct: 94  FTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQ--------VPVEEARSKAEEW-- 143
Query: 131 LIGSPAYIECSSKTQQNVKAVF 152
                 Y+E S+KT+ NV  VF
Sbjct: 144 ---GVQYVETSAKTRANVDKVF 162

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/146 (32%), Positives = 79/146 (54%), Gaps = 15/146 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 49  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSF 108
Query: 76  E--NVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
              N+ ++ I  ++  +  VP++LVG K DL          P    + T Q  EL K  G
Sbjct: 109 ADINLYREQIKRVKD-SDDVPMVLVGNKCDL----------PTRT-VDTKQAHELAKSYG 156
Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVV 159
            P +IE S+KT+Q V+  F   ++ +
Sbjct: 157 IP-FIETSAKTRQGVEDAFYTLVREI 181

>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 = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 32  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 91
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL          P    + T Q ++L +  G
Sbjct: 92  EDIHHYREQIKRVKD-SEDVPMVLVGNKCDL----------PSRT-VDTKQAQDLARSYG 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P +IE S+KT+Q V   F
Sbjct: 140 IP-FIETSAKTRQGVDDAF 157

>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 = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+ + +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEASAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETXLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGVEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 32  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 91
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL          P    + T Q ++L +  G
Sbjct: 92  EDIHHYREQIKRVKD-SEDVPMVLVGNKSDL----------PSRT-VDTKQAQDLARSYG 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P +IE S+KT+Q V   F
Sbjct: 140 IP-FIETSAKTRQGVDDAF 157

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 32  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 91
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL          P    + T Q ++L +  G
Sbjct: 92  EDIHHYREQIKRVKD-SEDVPMVLVGNKSDL----------PSRT-VDTKQAQDLARSYG 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P +IE S+KT+Q V   F
Sbjct: 140 IP-FIETSAKTRQGVDDAF 157

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  EYDPTIEDSYRKQVVIDGETCLLDILDTAGIEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 91  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 138
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 139 IP-YIETSAKTRQGVEDAF 156

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/138 (31%), Positives = 72/138 (52%), Gaps = 17/138 (12%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG  V + +WDTAGQE +  LR   YRG+D  +L FS+    S++N++  W  E  
Sbjct: 48  DLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLS-NWKKEFI 106
Query: 88  HYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           +YA        P +++G K+D+ + +           ++T + +   +  G   Y E S+
Sbjct: 107 YYADVKEPESFPFVILGNKIDISERQ-----------VSTEEAQAWCRDNGDYPYFETSA 155
Query: 143 KTQQNVKAVFDAAIKVVL 160
           K   NV A F+ A++ VL
Sbjct: 156 KDATNVAAAFEEAVRRVL 173

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S
Sbjct: 45  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMES 104
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +   A  ++ I  ++     VP +LVG K DL D +Q        V +  A+    R   
Sbjct: 105 FAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQ--------VSVEEAKN---RAEQ 152
Query: 133 GSPAYIECSSKTQQNVKAVF 152
            +  Y+E S+KT+ NV  VF
Sbjct: 153 WNVNYVETSAKTRANVDKVF 172

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S
Sbjct: 33  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMES 92
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +   A  ++ I  ++     VP +LVG K DL D +Q        V +  A+    R   
Sbjct: 93  FAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQ--------VSVEEAKN---RAEQ 140
Query: 133 GSPAYIECSSKTQQNVKAVF 152
            +  Y+E S+KT+ NV  VF
Sbjct: 141 WNVNYVETSAKTRANVDKVF 160

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S
Sbjct: 41  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMES 100
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +   A  ++ I  ++     VP +LVG K DL D +Q        V +  A+    R   
Sbjct: 101 FAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQ--------VSVEEAKN---RAEQ 148
Query: 133 GSPAYIECSSKTQQNVKAVF 152
            +  Y+E S+KT+ NV  VF
Sbjct: 149 WNVNYVETSAKTRANVDKVF 168

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/138 (31%), Positives = 72/138 (52%), Gaps = 17/138 (12%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG  V + +WDTAGQE +  LR   YRG+D  +L FS+    S++N++  W  E  
Sbjct: 50  DLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLS-NWKKEFI 108
Query: 88  HYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           +YA        P +++G K+D+ + +           ++T + +   +  G   Y E S+
Sbjct: 109 YYADVKEPESFPFVILGNKIDISERQ-----------VSTEEAQAWCRDNGDYPYFETSA 157
Query: 143 KTQQNVKAVFDAAIKVVL 160
           K   NV A F+ A++ VL
Sbjct: 158 KDATNVAAAFEEAVRRVL 175

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 36  EYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSF 95
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL            A  + + Q ++L +  G
Sbjct: 96  EDIHQYREQIKRVKD-SDDVPMVLVGNKCDL-----------AARTVESRQAQDLARSYG 143
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P YIE S+KT+Q V+  F
Sbjct: 144 IP-YIETSAKTRQGVEDAF 161

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/139 (33%), Positives = 77/139 (55%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 32  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 91
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL          P    + T Q ++L +  G
Sbjct: 92  EDIHHYREQIKRVKD-SEDVPMVLVGNKSDL----------PSRT-VDTKQAQDLARSYG 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P +IE S+KT+Q V   F
Sbjct: 140 IP-FIETSAKTRQGVDDAF 157

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/126 (36%), Positives = 68/126 (53%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAGQE Y R+    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 46  SIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 104
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 105 DHADSNIVIMLVGNKSDLR--------HLRAVPTDEARAFAEKNNL---SFIETSALDST 153
Query: 147 NVKAVF 152
           NV+  F
Sbjct: 154 NVEEAF 159

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S
Sbjct: 31  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMES 90
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +   A  ++ I  ++     VP +LVG K DL D +Q        V +  A+    R   
Sbjct: 91  FAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQ--------VSVEEAKN---RADQ 138
Query: 133 GSPAYIECSSKTQQNVKAVF 152
            +  Y+E S+KT+ NV  VF
Sbjct: 139 WNVNYVETSAKTRANVDKVF 158

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 45  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 103
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 104 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 152
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 153 TSMNVNEIFMAIAK 166

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 76/139 (54%), Gaps = 15/139 (10%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAG E+Y+ +R    R  + F+  F++ +  S+
Sbjct: 49  EYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSF 108
Query: 76  ENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   ++ I  ++  +  VP++LVG K DL          P    + T Q ++L +  G
Sbjct: 109 EDIHHYREQIKRVKD-SEDVPMVLVGNKCDL----------PSRT-VDTKQAQDLARSYG 156
Query: 134 SPAYIECSSKTQQNVKAVF 152
            P +IE S+KT+Q V   F
Sbjct: 157 IP-FIETSAKTRQGVDDAF 174

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/143 (33%), Positives = 76/143 (53%), Gaps = 14/143 (9%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ TV  +F   V+ VDG  V L +WDTAGQE +  +    YR A   +L + + +KAS+
Sbjct: 40  FISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASF 99
Query: 76  ENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           +N+ + W+ E+  YA   V ++L+G K+D   ++           +    GE+L K  G 
Sbjct: 100 DNI-QAWLTEIHEYAQHDVALMLLGNKVDSAHER----------VVKREDGEKLAKEYGL 148
Query: 135 PAYIECSSKTQQNVKAVFDAAIK 157
           P ++E S+KT  NV   F A  K
Sbjct: 149 P-FMETSAKTGLNVDLAFTAIAK 170

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 73.6 bits (179), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 73.6 bits (179), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 68/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 102
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 103 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 151
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 152 TSMNVNEIFMAIAK 165

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 73.2 bits (178), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/126 (36%), Positives = 68/126 (53%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAGQE Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 61  SIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 119
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 120 DHADSNIVIMLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 168
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 169 NVEAAF 174

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 73.2 bits (178), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/126 (36%), Positives = 68/126 (53%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAGQE Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 70  SIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 128
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 129 DHADSNIVIMLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 177
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 178 NVEAAF 183

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/140 (35%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 36  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 95
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           SY NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 96  SYANV-KQWLQEIDRYASENVNKLLVGNKSDLTTKK--------VVDNTTAK--EFADSL 144
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 145 GIP-FLETSAKNATNVEQAF 163

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/140 (35%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 36  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 95
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           SY NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 96  SYANV-KQWLQEIDRYASENVNKLLVGNKSDLTTKK--------VVDNTTAK--EFADSL 144
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 145 GIP-FLETSAKNATNVEQAF 163

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 66/134 (49%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + +  ++   AK W+ 
Sbjct: 43  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFAR-AKNWVK 101
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL   +        AV    AQ         S  ++E S+K
Sbjct: 102 ELQRQASPNIVIALAGNKADLASKR--------AVEFQEAQAYADD---NSLLFMETSAK 150
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 151 TAMNVNEIFMAIAK 164

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 26  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 85
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 86  SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 134
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 135 GIP-FLETSAKNATNVEQSF 153

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 66/134 (49%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + +  ++   AK W+ 
Sbjct: 41  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFAR-AKNWVK 99
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL   +        AV    AQ         S  ++E S+K
Sbjct: 100 ELQRQASPNIVIALAGNKADLASKR--------AVEFQEAQAYADD---NSLLFMETSAK 148
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 149 TAMNVNEIFMAIAK 162

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/140 (33%), Positives = 71/140 (50%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAG EDY  +R   +R  + F+  FS+    S
Sbjct: 33  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLCVFSITEMES 92
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +   A  ++ I  ++     VP +LVG K DL D +Q        V +  A+    R   
Sbjct: 93  FAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQ--------VSVEEAKN---RAEQ 140
Query: 133 GSPAYIECSSKTQQNVKAVF 152
            +  Y+E S+KT+ NV  VF
Sbjct: 141 WNVNYVETSAKTRANVDKVF 160

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 33  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 92
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 93  SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 141
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 142 GIP-FLETSAKNATNVEQSF 160

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/134 (35%), Positives = 66/134 (49%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAGQE Y+ L P  YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 45  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPXYYRGAQAAIVVYDITNEESFAR-AKNWVK 103
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  + E S+K
Sbjct: 104 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFXETSAK 152
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 153 TSXNVNEIFXAIAK 166

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 33  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 92
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 93  SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 141
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 142 GIP-FLETSAKNATNVEQSF 160

>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 = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 43  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 102
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 103 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 151
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 152 GIP-FLETSAKNATNVEQSF 170

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 52  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 111
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 112 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 160
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 161 GIP-FLETSAKNATNVEQSF 179

>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 = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 43  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 102
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 103 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 151
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 152 GIP-FLETSAKNATNVEQSF 170

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 60  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 119
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 120 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKK--------VVDYTTAK--EFADSL 168
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 169 GIP-FLETSAKNATNVEQSF 187

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 48/140 (34%), Positives = 73/140 (52%), Gaps = 14/140 (10%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 35  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 94
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K         V  TTA+  E    +
Sbjct: 95  SFNNV-KQWLQEIDRYASENVNKLLVGIKCDLTTKK--------VVDYTTAK--EFADSL 143
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G P ++E S+K   NV+  F
Sbjct: 144 GIP-FLETSAKNATNVEQSF 162

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/131 (35%), Positives = 70/131 (53%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  TV L LWDTAGQE +  L P   R + V ++ + + +  S++  + KW
Sbjct: 38  DFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTS-KW 96
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q          IT  +GE+  K + S  +IE S
Sbjct: 97  IDDVRTERGSDVIIMLVGNKTDLADKRQ----------ITIEEGEQRAKEL-SVMFIETS 145
Query: 142 SKTQQNVKAVF 152
           +KT  NVK +F
Sbjct: 146 AKTGYNVKQLF 156

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 67/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAG E Y+ L P+ YRGA   I+ + + ++ S+   AK W+ 
Sbjct: 43  LTQTVCLDDTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNEESFAR-AKNWVK 101
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +        AV    AQ         S  ++E S+K
Sbjct: 102 ELQRQASPNIVIALSGNKADLANKR--------AVDFQEAQSYADD---NSLLFMETSAK 150
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 151 TSMNVNEIFMAIAK 164

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 70.5 bits (171), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 43/134 (32%), Positives = 67/134 (50%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            + +V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ ++   AK W+ 
Sbjct: 46  LTQSVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFAR-AKTWVK 104
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL + +    +   A                S  ++E S+K
Sbjct: 105 ELQRQASPSIVIALAGNKADLANKRMVEYEEAQAYADDN-----------SLLFMETSAK 153
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 154 TAMNVNDLFLAIAK 167

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 67/126 (53%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAG E Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 49  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 107
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 108 DHADSNIVIMLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 156
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 157 NVEAAF 162

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 69.7 bits (169), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 67/126 (53%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAG E Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 70  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 128
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I+LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 129 DHADSNIVIMLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 177
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 178 NVEAAF 183

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 66/126 (52%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAG E Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 52  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 110
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 111 DHADSNIVIXLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 159
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 160 NVEAAF 165

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 72/145 (49%), Gaps = 15/145 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    V ++G  V L LWDTAGQE +  +    YRGA   IL + +  + ++
Sbjct: 49  FITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTF 108
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            N+ K+W   +  +A     ++LVG K D+               +T  QGE L K +G 
Sbjct: 109 TNI-KQWFKTVNEHANDEAQLLLVGNKSDME-----------TRVVTADQGEALAKELGI 156
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
           P +IE S+K   NV  +F    K++
Sbjct: 157 P-FIESSAKNDDNVNEIFFTLAKLI 180

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/126 (35%), Positives = 66/126 (52%), Gaps = 13/126 (10%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           ++ VDG T+   +WDTAG E Y  +    YRGA   +L + +    +YENV ++W+ ELR
Sbjct: 46  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ERWLKELR 104
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            +A   + I LVG K DLR        H  AVP   A+    +  +   ++IE S+    
Sbjct: 105 DHADSNIVIXLVGNKSDLR--------HLRAVPTDEARAFAEKNGL---SFIETSALDST 153
Query: 147 NVKAVF 152
           NV+A F
Sbjct: 154 NVEAAF 159

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 72/145 (49%), Gaps = 15/145 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    V ++G  V L LWDTAGQE +  +    YRGA   IL + +  + ++
Sbjct: 36  FITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTF 95
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            N+ K+W   +  +A     ++LVG K D+               +T  QGE L K +G 
Sbjct: 96  TNI-KQWFKTVNEHANDEAQLLLVGNKSDME-----------TRVVTADQGEALAKELGI 143
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
           P +IE S+K   NV  +F    K++
Sbjct: 144 P-FIESSAKNDDNVNEIFFTLAKLI 167

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/138 (33%), Positives = 71/138 (51%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           Y+ T+  +F    + ++  TV L +WDTAGQE +  +    YRGA   I+ + +  + S+
Sbjct: 38  YISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSF 97
Query: 76  ENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           +NV K+WI E+  YA   V  +LVG K DL   +           +T+ +G EL    G 
Sbjct: 98  DNV-KQWIQEIDRYAMENVNKLLVGNKCDLVSKR----------VVTSDEGRELADSHG- 145
Query: 135 PAYIECSSKTQQNVKAVF 152
             +IE S+K   NV+  F
Sbjct: 146 IKFIETSAKNAYNVEQAF 163

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/171 (28%), Positives = 83/171 (48%), Gaps = 27/171 (15%)
Query: 4   IYIICNYSLGKQDYVPTVFDN-----FSANVVVD---------GSTVNLGLWDTAGQEDY 49
           I II N S+GK  ++    D+     F + V +D            + L +WDTAGQE Y
Sbjct: 8   ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERY 67
Query: 50  NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDK 108
             +    YRGA  FIL + + ++ S+ N  + W  +++ Y+     ++LVG K D+ D++
Sbjct: 68  RTITTAYYRGAMGFILMYDITNEESF-NAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER 126
Query: 109 QFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
                      +++ +G +L   +G   + E S+K   NVK  F+  + V+
Sbjct: 127 ----------VVSSERGRQLADHLGFE-FFEASAKDNINVKQTFERLVDVI 166

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 71/145 (48%), Gaps = 15/145 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    V ++G  V L LWDTAGQE +  +    YRGA   IL + +  + ++
Sbjct: 32  FITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAXGIILVYDVTDERTF 91
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            N+ K+W   +  +A     ++LVG K D                +T  QGE L K +G 
Sbjct: 92  TNI-KQWFKTVNEHANDEAQLLLVGNKSDXE-----------TRVVTADQGEALAKELGI 139
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
           P +IE S+K   NV  +F    K++
Sbjct: 140 P-FIESSAKNDDNVNEIFFTLAKLI 163

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 72/145 (49%), Gaps = 15/145 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    V ++G  V L +WDTAGQE +  +    YRGA   IL + +  + ++
Sbjct: 32  FITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTF 91
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            N+ K+W   +  +A     ++LVG K D+               +T  QGE L K +G 
Sbjct: 92  TNI-KQWFKTVNEHANDEAQLLLVGNKSDME-----------TRVVTADQGEALAKELGI 139
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
           P +IE S+K   NV  +F    K++
Sbjct: 140 P-FIESSAKNDDNVNEIFFTLAKLI 163

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/134 (33%), Positives = 65/134 (48%), Gaps = 13/134 (9%)
Query: 25  FSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIP 84
            +  V +D +TV   +WDTAG E Y+ L P+ YRGA   I+ + + +  ++   AK W+ 
Sbjct: 43  LTQTVCLDDTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNTDTFAR-AKNWVK 101
Query: 85  EL-RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK 143
           EL R  +P + I L G K DL   +        AV    AQ         S  ++E S+K
Sbjct: 102 ELQRQASPNIVIALAGNKADLASKR--------AVEFQEAQAYADD---NSLLFMETSAK 150
Query: 144 TQQNVKAVFDAAIK 157
           T  NV  +F A  K
Sbjct: 151 TAMNVNEIFMAIAK 164

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/126 (31%), Positives = 63/126 (50%), Gaps = 12/126 (9%)
Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
            V + G  + L +WDTAGQE +N +    YR A   IL + +  K +++++  KW+  + 
Sbjct: 67  TVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLP-KWMKMID 125
Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            YA     ++LVG KLD   D++          IT  QGE+  + I    + E S+K   
Sbjct: 126 KYASEDAELLLVGNKLDCETDRE----------ITRQQGEKFAQQITGMRFCEASAKDNF 175
Query: 147 NVKAVF 152
           NV  +F
Sbjct: 176 NVDEIF 181

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 71/145 (48%), Gaps = 15/145 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    V ++G  V L +WDTAGQE +  +    YRGA   IL + +  + ++
Sbjct: 32  FITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAXGIILVYDITDERTF 91
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            N+ K+W   +  +A     ++LVG K D                +T  QGE L K +G 
Sbjct: 92  TNI-KQWFKTVNEHANDEAQLLLVGNKSDXE-----------TRVVTADQGEALAKELGI 139
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
           P +IE S+K   NV  +F    K++
Sbjct: 140 P-FIESSAKNDDNVNEIFFTLAKLI 163

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/145 (31%), Positives = 69/145 (47%), Gaps = 12/145 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D+++    VDG    L + DTAGQE++  +R    R    F+L F++  + S+
Sbjct: 37  DYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSF 96
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
             V K +   LR       P++LVG K DL   +Q        VP + A        +  
Sbjct: 97  NEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQ--------VPRSEASAFGASHHV-- 146
Query: 135 PAYIECSSKTQQNVKAVFDAAIKVV 159
            AY E S+K + NV   F+  ++ V
Sbjct: 147 -AYFEASAKLRLNVDEAFEQLVRAV 170

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 43/127 (33%), Positives = 65/127 (51%), Gaps = 14/127 (11%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR--HYAPGV 93
           V+L LWDTAGQE +  L    +R A  F+L F L S+ S+ NV + W+ +L+   Y    
Sbjct: 84  VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENP 142
Query: 94  PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
            I+L+G K DL D ++          +   Q  EL    G P Y E S+ T QNV+   +
Sbjct: 143 DIVLIGNKADLPDQRE----------VNERQARELADKYGIP-YFETSAATGQNVEKAVE 191
Query: 154 AAIKVVL 160
             + +++
Sbjct: 192 TLLDLIM 198

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 66.6 bits (161), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 77/150 (51%), Gaps = 16/150 (10%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           KQD   T+   F + VV V G TV L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 51  KQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 110
Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQF-FIDHPGAVPITTAQGEELRK 130
            +Y ++A  W+ + R  A P + +IL G K DL  +++  F++         AQ  EL  
Sbjct: 111 ETYNSLA-AWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEAS-----RFAQENEL-- 162
Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
                 ++E S+ T +NV+  F    + +L
Sbjct: 163 -----MFLETSALTGENVEEAFLKCARTIL 187

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 66.6 bits (161), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/131 (33%), Positives = 68/131 (51%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  TV L LWDTAGQE +  L P   R + V ++ + + +  S+   + KW
Sbjct: 50  DFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTS-KW 108
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q          ++T +GE   K + +  +IE S
Sbjct: 109 IDDVRTERGSDVIIMLVGNKTDLSDKRQ----------VSTEEGERKAKEL-NVMFIETS 157
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 158 AKAGYNVKQLF 168

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 66.6 bits (161), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 70/139 (50%), Gaps = 11/139 (7%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ ++++
Sbjct: 30  EKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQST 89
Query: 75  YENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + ++       LR      VP+ILVG K DL D++           +   QG+ L +   
Sbjct: 90  FNDLQDLREQILRVKDTDDVPMILVGNKCDLEDER----------VVGKEQGQNLARQWN 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K++ NV  +F
Sbjct: 140 NCAFLESSAKSKINVNEIF 158

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 66.6 bits (161), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 70/139 (50%), Gaps = 11/139 (7%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ ++++
Sbjct: 32  EKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQST 91
Query: 75  YENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + ++       LR      VP+ILVG K DL D++           +   QG+ L +   
Sbjct: 92  FNDLQDLREQILRVKDTDDVPMILVGNKCDLEDER----------VVGKEQGQNLARQWN 141
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K++ NV  +F
Sbjct: 142 NCAFLESSAKSKINVNEIF 160

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 54/95 (56%), Gaps = 3/95 (3%)
Query: 16  DYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           DY+ T+  +F    V +DG TV L +WDTAGQE +  +    YRG+   I+ + +  + S
Sbjct: 36  DYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQES 95
Query: 75  YENVAKKWIPELRHYAPGVPI-ILVGTKLDLRDDK 108
           +  V K W+ E+  YA    + +LVG K DL+D +
Sbjct: 96  FNGV-KMWLQEIDRYATSTVLKLLVGNKCDLKDKR 129

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 66.2 bits (160), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 54/95 (56%), Gaps = 3/95 (3%)
Query: 16  DYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           DY+ T+  +F    V +DG TV L +WDTAGQE +  +    YRG+   I+ + +  + S
Sbjct: 36  DYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQES 95
Query: 75  YENVAKKWIPELRHYAPGVPI-ILVGTKLDLRDDK 108
           +  V K W+ E+  YA    + +LVG K DL+D +
Sbjct: 96  FNGV-KMWLQEIDRYATSTVLKLLVGNKCDLKDKR 129

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 70/138 (50%), Gaps = 11/138 (7%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ +++++
Sbjct: 31  EYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTF 90
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            ++       LR      VP+ILVG K DL D++           +   QG+ L +   +
Sbjct: 91  NDLQDLREQILRVKDTEDVPMILVGNKCDLEDER----------VVGKEQGQNLARQWCN 140
Query: 135 PAYIECSSKTQQNVKAVF 152
            A++E S+K++ NV  +F
Sbjct: 141 CAFLESSAKSKINVNEIF 158

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/139 (28%), Positives = 70/139 (50%), Gaps = 11/139 (7%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ ++++
Sbjct: 30  EKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQST 89
Query: 75  YENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + ++       LR      VP+ILVG K DL D++           +   QG+ L +   
Sbjct: 90  FNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER----------VVGKEQGQNLARQWC 139
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K++ NV  +F
Sbjct: 140 NCAFLESSAKSKINVNEIF 158

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 35/96 (36%), Positives = 54/96 (56%), Gaps = 3/96 (3%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            DY+ T+  +F    V +DG TV L +WDTAGQE +  +    YRG+   I+ + +  + 
Sbjct: 48  NDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQE 107
Query: 74  SYENVAKKWIPELRHYAPGVPI-ILVGTKLDLRDDK 108
           S+  V K W+ E+  YA    + +LVG K DL+D +
Sbjct: 108 SFNGV-KMWLQEIDRYATSTVLKLLVGNKCDLKDKR 142

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 48/163 (29%), Positives = 76/163 (46%), Gaps = 20/163 (12%)
Query: 5   YIICNYSLGKQDYVPTVFDNF-SANVVVDGSTV-NLGLWDTAGQEDYNRLRPLSYRGADV 62
           Y+   YS   Q Y  T+  +F +  V VDG  V  + +WDTAGQE +  L    YRGAD 
Sbjct: 28  YVNDKYS---QQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC 84
Query: 63  FILAFSLISKASYENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGA 117
            +L + + + +S+EN+ K W  E   +A        P +++G K+D  + K+        
Sbjct: 85  CVLVYDVTNASSFENI-KSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKI------- 136
Query: 118 VPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             ++    +EL K +G       S+K   NV   F+   +  L
Sbjct: 137 --VSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSAL 177

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/127 (33%), Positives = 65/127 (51%), Gaps = 14/127 (11%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR--HYAPGV 93
           V+L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W+ +L+   Y    
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENP 128
Query: 94  PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
            I+L+G K DL D ++          +   Q  EL +  G P Y E S+ T QNV+   +
Sbjct: 129 DIVLIGNKADLPDQRE----------VNERQARELAEKYGIP-YFETSAATGQNVEKSVE 177
Query: 154 AAIKVVL 160
             + +++
Sbjct: 178 TLLDLIM 184

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 80/153 (52%), Gaps = 16/153 (10%)
Query: 6   IICNYSLGKQDY--VPTVFDNFSANVVVDGSTVNLGL-WDTAGQEDYNRLRPLSYRGADV 62
           I+C +     D+   PT+  +F    V  G+ ++  L WDTAGQE ++ L P+ YRG+  
Sbjct: 39  IVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAA 98
Query: 63  FILAFSLISKASYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
            ++ + +  + S+  + KKW+ EL+ + P  + + + G K DL D ++        VP+ 
Sbjct: 99  AVIVYDITKQDSFYTL-KKWVKELKEHGPENIVMAIAGNKCDLSDIRE--------VPLK 149
Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDA 154
            A+  E  + IG+   +E S+K   N++ +F  
Sbjct: 150 DAK--EYAESIGA-IVVETSAKNAINIEELFQG 179

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 50/171 (29%), Positives = 81/171 (47%), Gaps = 27/171 (15%)
Query: 4   IYIICNYSLGKQDYVPTVFDN-----FSANVVVD---------GSTVNLGLWDTAGQEDY 49
           + +I N S+GK  ++    D+     F + V +D            + L +WDTAGQE Y
Sbjct: 25  LLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERY 84
Query: 50  NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDK 108
             +    YRGA  F+L + + ++ S+  V + W  +++ Y+     +ILVG K DL D++
Sbjct: 85  RTITTAYYRGAMGFLLMYDIANQESFAAV-QDWATQIKTYSWDNAQVILVGNKCDLEDER 143
Query: 109 QFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
                    VP     G  L   +G   + E S+K   NVK VF+  + V+
Sbjct: 144 --------VVP--AEDGRRLADDLGFE-FFEASAKENINVKQVFERLVDVI 183

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 77/157 (49%), Gaps = 25/157 (15%)
Query: 17  YVPTVFDNFSANVVV------DGST-----VNLGLWDTAGQEDYNRLRPLSYRGADVFIL 65
           ++ TV  +F    VV      DG++     V+L LWDTAG E +  L    +R A  F+L
Sbjct: 40  FITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLL 99
Query: 66  AFSLISKASYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
            F L S+ S+ NV + W+ +L+   Y     I+L+G K DL D ++          +   
Sbjct: 100 MFDLTSQQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQRE----------VNER 148
Query: 124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
           Q  EL +  G P Y E S+ T QNV+   +  + +++
Sbjct: 149 QARELAEKYGIP-YFETSAATGQNVEKSVETLLDLIM 184

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 34/92 (36%), Positives = 53/92 (57%), Gaps = 3/92 (3%)
Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  +F    + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 25  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 84
Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDL 104
           S+ NV K+W+ E+  YA   V  +LVG K DL
Sbjct: 85  SFNNV-KQWLQEIDRYASENVNKLLVGNKCDL 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 = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/131 (32%), Positives = 67/131 (51%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  TV L LWDTAGQE +  L P   R + V ++ + + +  S++    KW
Sbjct: 37  DFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTT-KW 95
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q          ++  +GE   K + +  +IE S
Sbjct: 96  IDDVRTERGSDVIIMLVGNKTDLADKRQ----------VSIEEGERKAKEL-NVMFIETS 144
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 145 AKAGYNVKQLF 155

>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 = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/171 (27%), Positives = 81/171 (47%), Gaps = 27/171 (15%)
Query: 4   IYIICNYSLGKQDYVPTVFDN-----FSANVVVD---------GSTVNLGLWDTAGQEDY 49
           I II N S+GK  ++    D+     F + V +D            + L +WDTAG E Y
Sbjct: 11  ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERY 70
Query: 50  NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDK 108
             +    YRGA  FIL + + ++ S+ N  + W  +++ Y+     ++LVG K D  D++
Sbjct: 71  RTITTAYYRGAXGFILXYDITNEESF-NAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDER 129
Query: 109 QFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
                      +++ +G +L   +G   + E S+K   NVK  F+  + V+
Sbjct: 130 ----------VVSSERGRQLADHLGFE-FFEASAKDNINVKQTFERLVDVI 169

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 63.5 bits (153), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 13/146 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS+
Sbjct: 41  DYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF 100
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E+V +     LR       P+ILV  K+DL   ++          +T  QG+E+      
Sbjct: 101 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI 150
Query: 135 PAYIECSSKTQQ-NVKAVFDAAIKVV 159
           P YIE S+K    NV   F   ++V+
Sbjct: 151 P-YIETSAKDPPLNVDKTFHDLVRVI 175

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 13/146 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS+
Sbjct: 46  DYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF 105
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E+V +     LR       P+ILV  K+DL   ++          +T  QG+E+      
Sbjct: 106 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI 155
Query: 135 PAYIECSSKTQQ-NVKAVFDAAIKVV 159
           P YIE S+K    NV   F   ++V+
Sbjct: 156 P-YIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 48/171 (28%), Positives = 83/171 (48%), Gaps = 27/171 (15%)
Query: 4   IYIICNYSLGKQDYVPTVFDN-----FSANVVVD---------GSTVNLGLWDTAGQEDY 49
           + II N S+GK  ++    D+     F + V +D            V L +WDTAGQE Y
Sbjct: 26  LLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERY 85
Query: 50  NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDK 108
             +    YRGA  FIL + + ++ S+ N  + W  +++ Y+     +ILVG K D+ +++
Sbjct: 86  RTITTAYYRGAMGFILMYDITNEESF-NAVQDWATQIKTYSWDNAQVILVGNKCDMEEER 144
Query: 109 QFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
                    VP  T +G+ L + +G   + E S+K   +V+  F+  +  +
Sbjct: 145 --------VVP--TEKGQLLAEQLGFD-FFEASAKENISVRQAFERLVDAI 184

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 73/138 (52%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F +  + + G  VNL +WDTAGQE ++ L P+ YR ++  IL + +  + S+
Sbjct: 35  HITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSF 94
Query: 76  ENVAKKWIPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           + V K W+ ELR      + + +VG K+DL  ++           ++  + E   + +G+
Sbjct: 95  QKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA 143
Query: 135 PAYIECSSKTQQNVKAVF 152
             Y   S+K  + ++ +F
Sbjct: 144 KHY-HTSAKQNKGIEELF 160

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 72/138 (52%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    + +DG  + L +WDTAGQE +  +    YRGA   +L + + ++ S+
Sbjct: 35  FISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF 94
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           +N+ + WI  +  +A   V  +++G K D+ D +Q          ++  +GE+L  L   
Sbjct: 95  DNI-RNWIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKL-ALDYG 142
Query: 135 PAYIECSSKTQQNVKAVF 152
             ++E S+K   NV+  F
Sbjct: 143 IKFMETSAKANINVENAF 160

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 63.5 bits (153), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 73/138 (52%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F +  + + G  VNL +WDTAGQE ++ L P+ YR ++  IL + +  + S+
Sbjct: 35  HITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSF 94
Query: 76  ENVAKKWIPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           + V K W+ ELR      + + +VG K+DL  ++           ++  + E   + +G+
Sbjct: 95  QKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA 143
Query: 135 PAYIECSSKTQQNVKAVF 152
             Y   S+K  + ++ +F
Sbjct: 144 KHY-HTSAKQNKGIEELF 160

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 70/145 (48%), Gaps = 13/145 (8%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           Y+ T+  +F    V ++G  V L +WDTAGQE +  +    YRG    I+ + + S  S+
Sbjct: 38  YITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESF 97
Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
            NV K+W+ E+      V  ILVG K D  D ++  ++   A       G +L       
Sbjct: 98  VNV-KRWLHEINQNCDDVCRILVGNKND--DPERKVVETEDAYKFAGQMGIQL------- 147
Query: 136 AYIECSSKTQQNVKAVFDAAIKVVL 160
              E S+K   NV+ +F+   ++VL
Sbjct: 148 --FETSAKENVNVEEMFNCITELVL 170

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 63.2 bits (152), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 68/133 (51%), Gaps = 14/133 (10%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           V ++G  V L +WDTAGQE +  +    YR A+  IL + +  + S+  +  +W+ E+  
Sbjct: 68  VEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLP-EWLREIEQ 126
Query: 89  YAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           YA   V  +LVG K+DL + ++  +    A   + AQ            Y+E S+K   N
Sbjct: 127 YASNKVITVLVGNKIDLAERRE--VSQQRAEEFSEAQ---------DMYYLETSAKESDN 175
Query: 148 VKAVF-DAAIKVV 159
           V+ +F D A +++
Sbjct: 176 VEKLFLDLACRLI 188

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 63.2 bits (152), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 72/138 (52%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F    + +DG  + L +WDTAGQE +  +    YRGA   +L + + ++ S+
Sbjct: 37  FISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF 96
Query: 76  ENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           +N+ + WI  +  +A   V  +++G K D+ D +Q          ++  +GE+L  L   
Sbjct: 97  DNI-RNWIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKL-ALDYG 144
Query: 135 PAYIECSSKTQQNVKAVF 152
             ++E S+K   NV+  F
Sbjct: 145 IKFMETSAKANINVENAF 162

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 63.2 bits (152), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 73/138 (52%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           ++ T+  +F +  + + G  VNL +WDTAGQE ++ L P+ YR ++  IL + +  + S+
Sbjct: 49  HITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSF 108
Query: 76  ENVAKKWIPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           + V K W+ ELR      + + +VG K+DL  ++           ++  + E   + +G+
Sbjct: 109 QKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA 157
Query: 135 PAYIECSSKTQQNVKAVF 152
             Y   S+K  + ++ +F
Sbjct: 158 KHY-HTSAKQNKGIEELF 174

>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 = 63.2 bits (152), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 14/126 (11%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR--HYAPGV 93
           V+L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W  +L+   Y    
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNV-RNWXSQLQANAYCENP 128
Query: 94  PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
            I+L+G K DL D ++          +   Q  EL +  G P Y E S+ T QNV+   +
Sbjct: 129 DIVLIGNKADLPDQRE----------VNERQARELAEKYGIP-YFETSAATGQNVEKSVE 177
Query: 154 AAIKVV 159
             + ++
Sbjct: 178 TLLDLI 183

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 63.2 bits (152), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 14/126 (11%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR--HYAPGV 93
           V+L LWDTAG E +  L    +R A  F+L F L S+ S+ NV + W  +L+   Y    
Sbjct: 70  VHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNV-RNWXSQLQANAYCENP 128
Query: 94  PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
            I+L+G K DL D ++          +   Q  EL +  G P Y E S+ T QNV+   +
Sbjct: 129 DIVLIGNKADLPDQRE----------VNERQARELAEKYGIP-YFETSAATGQNVEKSVE 177
Query: 154 AAIKVV 159
             + ++
Sbjct: 178 TLLDLI 183

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/146 (30%), Positives = 74/146 (50%), Gaps = 13/146 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS+
Sbjct: 46  EYDPTIEDSYRKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF 105
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E+V +     LR       P+ILV  K+DL   ++          +T  QG+E+      
Sbjct: 106 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI 155
Query: 135 PAYIECSSKTQQ-NVKAVFDAAIKVV 159
           P YIE S+K    NV   F   ++V+
Sbjct: 156 P-YIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/147 (26%), Positives = 70/147 (47%), Gaps = 13/147 (8%)
Query: 14  KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++ Y+PTV D +   +  D S   L + DT G   +  ++ LS      FIL +S+ S+ 
Sbjct: 29  RESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQ 88
Query: 74  SYENVAK--KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           S E +    + I E++     +PI+LVG K D    ++          + +++ E L + 
Sbjct: 89  SLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALAR- 137
Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKV 158
               A++E S+K   NVK +F   + +
Sbjct: 138 TWKCAFMETSAKLNHNVKELFQELLNL 164

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 43/140 (30%), Positives = 68/140 (48%), Gaps = 11/140 (7%)
Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++  PT+   F +  V ++  TV   +WDTAGQE +  L P  YR A   ++ + +    
Sbjct: 30  ENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQ 89
Query: 74  SYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+   A+ W+ EL   A   + I LVG K+D        +   G   +   +GE+L +  
Sbjct: 90  SFIK-ARHWVKELHEQASKDIIIALVGNKIDX-------LQEGGERKVAREEGEKLAEEK 141
Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G   + E S+KT +NV  VF
Sbjct: 142 G-LLFFETSAKTGENVNDVF 160

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/146 (30%), Positives = 74/146 (50%), Gaps = 13/146 (8%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS+
Sbjct: 46  EYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF 105
Query: 76  ENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           E+V +     LR       P+ILV  K+DL   ++          +T  QG+E+      
Sbjct: 106 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYNI 155
Query: 135 PAYIECSSKTQQ-NVKAVFDAAIKVV 159
           P YIE S+K    NV   F   ++V+
Sbjct: 156 P-YIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/94 (35%), Positives = 50/94 (53%), Gaps = 2/94 (2%)
Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +DY  T+  D     + V+   V L LWDTAGQE+++ +    YRGA   +L FS   + 
Sbjct: 32  KDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRE 91
Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD 107
           S+E ++  W  ++      +P  LV  K+DL DD
Sbjct: 92  SFEAIS-SWREKVVAEVGDIPTALVQNKIDLLDD 124

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 42/131 (32%), Positives = 66/131 (50%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  T+ L LWDTAGQE +  L P   R +   ++ + + +  S++    KW
Sbjct: 42  DFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTT-KW 100
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q  I+          +GE   K + +  +IE S
Sbjct: 101 IDDVRTERGSDVIIMLVGNKTDLADKRQVSIE----------EGERKAKEL-NVMFIETS 149
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 150 AKAGYNVKQLF 160

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 60.5 bits (145), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 43/131 (32%), Positives = 66/131 (50%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  TV L LWDTAG E +  L P   R + V ++ + + +  S++    KW
Sbjct: 42  DFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTT-KW 100
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q  I+          +GE   K + +  +IE S
Sbjct: 101 IDDVRTERGSDVIIMLVGNKTDLADKRQVSIE----------EGERKAKEL-NVMFIETS 149
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 150 AKAGYNVKQLF 160

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 60.1 bits (144), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 41/138 (29%), Positives = 66/138 (47%), Gaps = 14/138 (10%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE 76
           Y+PT+ D +   +  D S   L + DT G   +  ++ LS      FIL FS+ SK S E
Sbjct: 37  YIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLE 96
Query: 77  NVAK--KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
            +    K I +++     +P++LVG K    D+ Q  +D   A  +     +E +     
Sbjct: 97  ELGPIYKLIVQIKGSVEDIPVMLVGNKC---DETQREVDTREAQAV----AQEWK----- 144
Query: 135 PAYIECSSKTQQNVKAVF 152
            A++E S+K   NVK +F
Sbjct: 145 CAFMETSAKMNYNVKELF 162

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 60.1 bits (144), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 61/114 (53%), Gaps = 13/114 (11%)
Query: 40  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILV 98
           +WDTAGQE Y  +    YRGA   +L + +  K S+EN+ +KW+ ELR  A   + I+LV
Sbjct: 61  IWDTAGQERYRAITSAYYRGAVGALLVYDITKKNSFENI-EKWLKELRDNADSNIVILLV 119
Query: 99  GTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           G K DL+  +   I+   A     A+ E+L       A+IE S+    NV+  F
Sbjct: 120 GNKSDLKHLR--VINDNDATQY--AKKEKL-------AFIETSALEATNVELAF 162

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 59.7 bits (143), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 43/131 (32%), Positives = 66/131 (50%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  TV L LWDTAG E +  L P   R + V ++ + + +  S++    KW
Sbjct: 52  DFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTT-KW 110
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q  I+          +GE   K + +  +IE S
Sbjct: 111 IDDVRTERGSDVIIMLVGNKTDLADKRQVSIE----------EGERKAKEL-NVMFIETS 159
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 160 AKAGYNVKQLF 170

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 59.7 bits (143), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 79/159 (49%), Gaps = 10/159 (6%)
Query: 3   FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGAD 61
           F+  +C     +++   T+  +F    ++VDG    L LWDTAGQE +  +    +R AD
Sbjct: 44  FLMRLCKNEF-RENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKAD 102
Query: 62  VFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPI 120
             +L + +  + S+ N+ ++W+  +   A   VPI+LVG K D+RD         G   +
Sbjct: 103 GVLLLYDVTCEKSFLNI-REWVDMIEDAAHETVPIMLVGNKADIRDTAA----TEGQKCV 157
Query: 121 TTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKV 158
               GE+L    G+  + E S+K   N V+AV   A +V
Sbjct: 158 PGHFGEKLAMTYGA-LFCETSAKDGSNIVEAVLHLAREV 195

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/145 (28%), Positives = 76/145 (52%), Gaps = 14/145 (9%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D +   + VD S   L + DTAG E +  +R L  +    FIL +SL+++ S
Sbjct: 30  EKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQS 89
Query: 75  YENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++++   +  I  ++ Y   VP+ILVG K+DL               +++++G  L +  
Sbjct: 90  FQDIKPMRDQIIRVKRYEK-VPVILVGNKVDLE----------SEREVSSSEGRALAEEW 138
Query: 133 GSPAYIECSSKTQQNVKAVFDAAIK 157
           G P ++E S+K++  V  +F   ++
Sbjct: 139 GCP-FMETSAKSKTMVDELFAEIVR 162

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 72/150 (48%), Gaps = 16/150 (10%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           K D   T+   F + ++ V G  V L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 36  KDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 95
Query: 73  ASYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQF-FIDHPGAVPITTAQGEELRK 130
            +Y N    W+ + R  A   + IIL G K DL  D++  F++         AQ  EL  
Sbjct: 96  ETY-NALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS-----RFAQENEL-- 147
Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
                 ++E S+ T +NV+  F    + +L
Sbjct: 148 -----MFLETSALTGENVEEAFVQCARKIL 172

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 62/125 (49%), Gaps = 13/125 (10%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR- 87
           + +DG  + L +WDTAGQE +  +    YRGA   +L + +  + ++ ++   W+ + R 
Sbjct: 52  ITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLT-TWLEDARQ 110
Query: 88  HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           H    + I+L+G K DL   ++          +   +GE   +  G   ++E S+KT  N
Sbjct: 111 HSNSNMVIMLIGNKSDLESRRE----------VKKEEGEAFAREHG-LIFMETSAKTASN 159
Query: 148 VKAVF 152
           V+  F
Sbjct: 160 VEEAF 164

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/135 (28%), Positives = 67/135 (49%), Gaps = 14/135 (10%)
Query: 20  TVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV 78
           T+   F A +V +DG  + L +WDTAGQE +  +    YRGA   +L + +  + ++ ++
Sbjct: 53  TIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL 112
Query: 79  AKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
              W+ + R H +  + I+L+G K DL   +           +   +GE   +  G   +
Sbjct: 113 T-SWLEDARQHSSSNMVIMLIGNKSDLESRR----------DVKREEGEAFAREHG-LIF 160
Query: 138 IECSSKTQQNVKAVF 152
           +E S+KT  NV+  F
Sbjct: 161 METSAKTACNVEEAF 175

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/134 (28%), Positives = 66/134 (49%), Gaps = 15/134 (11%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + VDG+   L +WDTAGQE +  L P  YRGA   IL + +  + ++  +   W+ EL  
Sbjct: 57  ISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKL-DNWLNELET 115
Query: 89  YAPGVPII--LVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
           Y     I+  LVG K+D +++++  +D    +               S  +IE S+KT  
Sbjct: 116 YCTRNDIVNXLVGNKID-KENRE--VDRNEGLKFARKH---------SXLFIEASAKTCD 163
Query: 147 NVKAVFDAAIKVVL 160
            V+  F+  ++ ++
Sbjct: 164 GVQCAFEELVEKII 177

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/130 (29%), Positives = 62/130 (47%), Gaps = 14/130 (10%)
Query: 33  GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH--YA 90
           G  ++L LWDTAG E +  L    +R A  F+L F L ++ S+ NV + WI +L+   Y+
Sbjct: 67  GQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNV-RNWISQLQMHAYS 125
Query: 91  PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA 150
               I+L G K DL D +           +   +  EL +  G P Y E S+    N+  
Sbjct: 126 ENPDIVLCGNKSDLEDQR----------AVKEEEARELAEKYGIP-YFETSAANGTNISH 174
Query: 151 VFDAAIKVVL 160
             +  + +++
Sbjct: 175 AIEMLLDLIM 184

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 42/134 (31%), Positives = 61/134 (45%), Gaps = 21/134 (15%)
Query: 31  VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA 90
           ++G  +   +WDTAGQE Y  +    YRGA   ++ + +   +SYEN    W+ ELR  A
Sbjct: 57  IEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENC-NHWLSELRENA 115
Query: 91  -PGVPIILVGTKLDLRDDKQFFIDHPGAVPI----TTAQGEELRKLIGSPAYIECSSKTQ 145
              V + L+G K DL         H  AVP     T AQ  +L        + E S+   
Sbjct: 116 DDNVAVGLIGNKSDLA--------HLRAVPTEESKTFAQENQL-------LFTETSALNS 160
Query: 146 QNVKAVFDAAIKVV 159
           +NV   F+  I  +
Sbjct: 161 ENVDKAFEELINTI 174

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 67/132 (50%), Gaps = 13/132 (9%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + V G  + L +WDTAGQE +  +    YRGA   ++ + +  +++Y +++  W+ + R+
Sbjct: 57  IEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLS-SWLTDARN 115
Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
              P   IIL+G K DL   +           +T  + ++  +  G   ++E S+KT +N
Sbjct: 116 LTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENG-LLFLEASAKTGEN 164
Query: 148 VKAVFDAAIKVV 159
           V+  F  A K +
Sbjct: 165 VEDAFLEAAKKI 176

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 63/123 (51%), Gaps = 12/123 (9%)
Query: 31  VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA 90
           + G  V L +WDTAGQE +  +    YR A+  ILA+ +  ++S+ +V   WI ++R YA
Sbjct: 73  IQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVP-HWIEDVRKYA 131
Query: 91  -PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK 149
              +  +L+G K DL + ++          ++ A+ + L +       IE S+K   NV+
Sbjct: 132 GSNIVQLLIGNKSDLSELRE----------VSLAEAQSLAEHYDILCAIETSAKDSSNVE 181
Query: 150 AVF 152
             F
Sbjct: 182 EAF 184

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 57.4 bits (137), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 65/131 (49%), Gaps = 13/131 (9%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  S  + ++  T+ L LWDTAG E +  L P   R +   ++ + + +  S++    KW
Sbjct: 49  DFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTT-KW 107
Query: 83  IPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           I ++R      V I+LVG K DL D +Q  I+          +GE   K + +  +IE S
Sbjct: 108 IDDVRTERGSDVIIMLVGNKTDLADKRQVSIE----------EGERKAKEL-NVMFIETS 156
Query: 142 SKTQQNVKAVF 152
           +K   NVK +F
Sbjct: 157 AKAGYNVKQLF 167

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 44/145 (30%), Positives = 68/145 (46%), Gaps = 14/145 (9%)
Query: 10  YSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFS 68
           Y     +Y  T+  D  S  + +D   V L LWDTAGQE +  L P   R +   I+ + 
Sbjct: 23  YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYD 82
Query: 69  LISKASYENVAKKWIPE-LRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE 127
           + ++ S+EN   KWI + L      V I LVG K DL D ++          +T  +G +
Sbjct: 83  ITNRQSFENTT-KWIQDILNERGKDVIIALVGNKTDLGDLRK----------VTYEEGXQ 131
Query: 128 LRKLIGSPAYIECSSKTQQNVKAVF 152
             +   +  + E S+K   N+K +F
Sbjct: 132 KAQEYNT-XFHETSAKAGHNIKVLF 155

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 57.0 bits (136), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 72/150 (48%), Gaps = 16/150 (10%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           K D   T+   F + ++ V G  V L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 37  KDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 96
Query: 73  ASYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQF-FIDHPGAVPITTAQGEELRK 130
            +Y N    W+ + R  A   + IIL G K DL  D++  F++         AQ  EL  
Sbjct: 97  ETY-NALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS-----RFAQENEL-- 148
Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
                 ++E S+ T ++V+  F    + +L
Sbjct: 149 -----MFLETSALTGEDVEEAFVQCARKIL 173

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 56.6 bits (135), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 28/73 (38%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE Y  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 56.2 bits (134), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 42/130 (32%), Positives = 65/130 (50%), Gaps = 18/130 (13%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           +N++ N+      +   +WDTAGQE Y  + PL YRGA   I+ F  IS ++  + AK W
Sbjct: 84  NNYNENLC----NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFD-ISNSNTLDRAKTW 138
Query: 83  IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           + +L+  +    IILV  K+   D  +F +D         AQ   L        +I+ S+
Sbjct: 139 VNQLK-ISSNYIIILVANKI---DKNKFQVDILEVQKY--AQDNNL-------LFIQTSA 185
Query: 143 KTQQNVKAVF 152
           KT  N+K +F
Sbjct: 186 KTGTNIKNIF 195

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 56.2 bits (134), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 2/96 (2%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           ++ YVPT+       V   +   +   +WDTAGQE +  LR   Y  A   I+ F + S+
Sbjct: 36  EKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSR 95
Query: 73  ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK 108
            +Y+NV   W  +L      +PI+L G K+D++D K
Sbjct: 96  VTYKNVP-NWHRDLVRVCENIPIVLCGNKVDIKDRK 130

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/140 (29%), Positives = 71/140 (50%), Gaps = 16/140 (11%)
Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+   +     +D   V++ + DTAGQED  + R    R  + F+L + +  + S+
Sbjct: 56  EYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSF 114
Query: 76  ENV--AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E V   K  + E++     V +ILVG K DL   +Q          ++T +GE+L   + 
Sbjct: 115 EEVLPLKNILDEIKK-PKNVTLILVGNKADLDHSRQ----------VSTEEGEKLATEL- 162
Query: 134 SPAYIECSSKT-QQNVKAVF 152
           + A+ ECS+ T + N+  +F
Sbjct: 163 ACAFYECSACTGEGNITEIF 182

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 40  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR-HYAPGVPIILV 98
           +WDTAGQE +  L P+ YRG+   I+ + +  + ++  + K W+ ELR H  P + + + 
Sbjct: 58  IWDTAGQERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KNWVRELRQHGPPSIVVAIA 116
Query: 99  GTKLDLRDDKQ 109
           G K DL D ++
Sbjct: 117 GNKCDLTDVRE 127

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 2/96 (2%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           ++ YVPT+       V   +   +   +WDTAGQE +  LR   Y  A   I+ F + S+
Sbjct: 36  EKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSR 95
Query: 73  ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDK 108
            +Y+NV   W  +L      +PI+L G K+D++D K
Sbjct: 96  VTYKNVP-NWHRDLVRVCENIPIVLCGNKVDIKDRK 130

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 68/150 (45%), Gaps = 18/150 (12%)
Query: 15  QDYVPTVFDNFSANVVVDGST-VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            D   T+   FS   V+ G+  V   +WDTAG E Y  +    YRGA   +L F L    
Sbjct: 37  HDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQ 96
Query: 74  SYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +Y  V ++W+ EL  +A   + ++LVG K DL   ++        VP      EE R   
Sbjct: 97  TYA-VVERWLKELYDHAEATIVVMLVGNKSDLSQARE--------VPT-----EEARMFA 142
Query: 133 GSPA--YIECSSKTQQNVKAVFDAAIKVVL 160
            +    ++E S+    NV+  F+  +K + 
Sbjct: 143 ENNGLLFLETSALDSTNVELAFETVLKEIF 172

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 52  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 110
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 111 VLCGNKVDIKDRK 123

>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 = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 122
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 123 VLCGNKVDIKDRK 135

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 64  IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 122
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 123 VLCGNKVDIKDRK 135

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 68/150 (45%), Gaps = 18/150 (12%)
Query: 15  QDYVPTVFDNFSANVVVDGST-VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            D   T+   FS   V+ G+  V   +WDTAG E Y  +    YRGA   +L F L    
Sbjct: 52  HDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQ 111
Query: 74  SYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +Y  V ++W+ EL  +A   + ++LVG K DL   ++        VP      EE R   
Sbjct: 112 TYA-VVERWLKELYDHAEATIVVMLVGNKSDLSQARE--------VPT-----EEARMFA 157
Query: 133 GSPA--YIECSSKTQQNVKAVFDAAIKVVL 160
            +    ++E S+    NV+  F+  +K + 
Sbjct: 158 ENNGLLFLETSALDSTNVELAFETVLKEIF 187

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 66/132 (50%), Gaps = 13/132 (9%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + V G  + L +WDTAGQ  +  +    YRGA   ++ + +  +++Y +++  W+ + R+
Sbjct: 72  IEVSGQKIKLQIWDTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLS-SWLTDARN 130
Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
              P   IIL+G K DL   +           +T  + ++  +  G   ++E S+KT +N
Sbjct: 131 LTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENG-LLFLEASAKTGEN 179
Query: 148 VKAVFDAAIKVV 159
           V+  F  A K +
Sbjct: 180 VEDAFLEAAKKI 191

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 54.3 bits (129), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/136 (29%), Positives = 63/136 (46%), Gaps = 7/136 (5%)
Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           K D   T+   F + ++ V G  V L +WDTAG E +  +    YRGA   +L + + S+
Sbjct: 34  KDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLERFRSVTRSYYRGAAGALLVYDITSR 93
Query: 73  ASYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQF-FIDHPGAVPITTAQGEELRK 130
            +Y N    W+ + R  A   + IIL G K DL  D++  F++             E   
Sbjct: 94  ETY-NALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSA 152
Query: 131 LIG---SPAYIECSSK 143
           L G     A+++C+ K
Sbjct: 153 LTGEDVEEAFVQCARK 168

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 53.1 bits (126), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAGQE +  L    Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 77/148 (52%), Gaps = 16/148 (10%)
Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSY-RGADVFILAFSLISKA 73
           + Y PTV + +S  V +     +L L DTAGQ++Y+ L P S+  G   ++L +S+ S  
Sbjct: 51  EGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSIL-PYSFIIGVHGYVLVYSVTSLH 109
Query: 74  SYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           S++ V +    +L   H    VP++LVG K DL  +++          +   +G++L + 
Sbjct: 110 SFQ-VIESLYQKLHEGHGKTRVPVVLVGNKADLSPERE----------VQAVEGKKLAES 158
Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVV 159
            G+  ++E S++  Q  + +F   I+ +
Sbjct: 159 WGA-TFMESSARENQLTQGIFTKVIQEI 185

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           V +DG  + + LWDTAGQE + + +    YR     +  + + + AS+ ++   WI E +
Sbjct: 62  VDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLP-AWIEECK 120
Query: 88  HY--APGVPIILVGTKLDLR 105
            +  A  +P ILVG K DLR
Sbjct: 121 QHLLANDIPRILVGNKCDLR 140

>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 = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 40  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR-HYAPGVPIILV 98
           +WDTAG E +  L P+ YRG+   I+ + +  + ++  + K W+ ELR H  P + + + 
Sbjct: 59  IWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KNWVRELRQHGPPSIVVAIA 117
Query: 99  GTKLDLRDDKQ 109
           G K DL D ++
Sbjct: 118 GNKCDLTDVRE 128

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/141 (24%), Positives = 65/141 (46%), Gaps = 17/141 (12%)
Query: 23  DNFSANVVVDGSTVN---LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
           D +   ++VDG +     L +W+  G+ ++  L     +  D +++ +S+  +AS+E  +
Sbjct: 43  DTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKAS 100
Query: 80  KKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI 138
           +  I   R      +PIILVG K DL   ++  +    A  +           +    +I
Sbjct: 101 ELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAV-----------VFDXKFI 149
Query: 139 ECSSKTQQNVKAVFDAAIKVV 159
           E S+  Q NVK +F+  ++ V
Sbjct: 150 ETSAAVQHNVKELFEGIVRQV 170

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 61  IKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 119
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 120 VLCGNKVDIKDRK 132

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/141 (24%), Positives = 65/141 (46%), Gaps = 17/141 (12%)
Query: 23  DNFSANVVVDGSTVN---LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
           D +   ++VDG +     L +W+  G+ ++  L     +  D +++ +S+  +AS+E  +
Sbjct: 43  DTYERTLMVDGESATIILLDMWENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKAS 100
Query: 80  KKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI 138
           +  I   R      +PIILVG K DL   ++  +    A  +           +    +I
Sbjct: 101 ELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAV-----------VFDCKFI 149
Query: 139 ECSSKTQQNVKAVFDAAIKVV 159
           E S+  Q NVK +F+  ++ V
Sbjct: 150 ETSAAVQHNVKELFEGIVRQV 170

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 55  IKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 113
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 114 VLCGNKVDIKDRK 126

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 59  IKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPI 117
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D++D K
Sbjct: 118 VLCGNKVDIKDRK 130

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 37/125 (29%), Positives = 55/125 (44%), Gaps = 13/125 (10%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           + V+   +   +WDTAG E Y  +    YRGA   ++ + +   +SYEN    W+ ELR 
Sbjct: 52  IEVENKKIKAQIWDTAGLERYRAITSAYYRGAVGALIVYDISKSSSYEN-CNHWLTELRE 110
Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
            A   V + L+G K DL         H  AVP   A+   +   +    + E S+    N
Sbjct: 111 NADDNVAVGLIGNKSDLA--------HLRAVPTDEAKNFAMENQM---LFTETSALNSDN 159
Query: 148 VKAVF 152
           V   F
Sbjct: 160 VDKAF 164

>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 = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 4/88 (4%)
Query: 29  VVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
           V +DG  + + LWDTAGQE + + +    YR     +  +   + AS+ ++   WI E +
Sbjct: 71  VDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLP-AWIEECK 129
Query: 88  HY--APGVPIILVGTKLDLRDDKQFFID 113
            +  A  +P ILVG K DLR   Q   D
Sbjct: 130 QHLLANDIPRILVGNKCDLRSAIQVPTD 157

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/143 (26%), Positives = 64/143 (44%), Gaps = 17/143 (11%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  +  V+VD   V + +WDTAGQE +  L    YRGAD  +L F + +  +++ +   W
Sbjct: 44  DFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DSW 102
Query: 83  IPE-LRHYAP----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
             E L   +P      P +++G K+DL + +           + T + +       +  Y
Sbjct: 103 RDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPY 151
Query: 138 IECSSKTQQNVKAVFDAAIKVVL 160
            E S+K   NV+  F    +  L
Sbjct: 152 FETSAKEAINVEQAFQTIARNAL 174

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/143 (26%), Positives = 64/143 (44%), Gaps = 17/143 (11%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  +  V+VD   V + +WDTAGQE +  L    YRGAD  +L F + +  +++ +   W
Sbjct: 44  DFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DSW 102
Query: 83  IPE-LRHYAP----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
             E L   +P      P +++G K+DL + +           + T + +       +  Y
Sbjct: 103 RDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPY 151
Query: 138 IECSSKTQQNVKAVFDAAIKVVL 160
            E S+K   NV+  F    +  L
Sbjct: 152 FETSAKEAINVEQAFQTIARNAL 174

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/141 (24%), Positives = 65/141 (46%), Gaps = 17/141 (12%)
Query: 23  DNFSANVVVDGSTVN---LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
           D +   ++VDG +     L +W+  G+ ++  L     +  D +++ +S+  +AS+E  +
Sbjct: 43  DTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKAS 100
Query: 80  KKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI 138
           +  I   R      +PIILVG K DL   ++  +    A  +           +    +I
Sbjct: 101 ELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAV-----------VFDCKFI 149
Query: 139 ECSSKTQQNVKAVFDAAIKVV 159
           E S+  Q NVK +F+  ++ V
Sbjct: 150 ETSAAVQHNVKELFEGIVRQV 170

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/141 (24%), Positives = 65/141 (46%), Gaps = 17/141 (12%)
Query: 23  DNFSANVVVDGSTVN---LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
           D +   ++VDG +     L +W+  G+ ++  L     +  D +++ +S+  +AS+E  +
Sbjct: 74  DTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKAS 131
Query: 80  KKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYI 138
           +  I   R      +PIILVG K DL   ++  +    A  +           +    +I
Sbjct: 132 ELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAV-----------VFDCKFI 180
Query: 139 ECSSKTQQNVKAVFDAAIKVV 159
           E S+  Q NVK +F+  ++ V
Sbjct: 181 ETSAAVQHNVKELFEGIVRQV 201

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 28/160 (17%)
Query: 4   IYIICNYSLGKQDYVPTVFD-----NFSANVVV----------DGSTVNLGLWDTAGQED 48
           I +I +  +GK  Y+  V D     N++A V             G+ +   +WDTAGQE 
Sbjct: 14  ICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEK 73
Query: 49  YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDD 107
              L+ + Y GA   IL F + S+ + +N+A +W+ E +       PI++   K+D+++ 
Sbjct: 74  KAVLKDVYYIGASGAILFFDVTSRITCQNLA-RWVKEFQAVVGNEAPIVVCANKIDIKNR 132
Query: 108 KQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           ++  I     + +   +  E         Y E S+KT  N
Sbjct: 133 QK--ISKKLVMEVLKGKNYE---------YFEISAKTAHN 161

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 54  IKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVP-NWHRDLVRVCENIPI 112
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D+++ K
Sbjct: 113 VLCGNKVDVKERK 125

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 53  IKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVP-NWHRDLVRVCENIPI 111
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D+++ K
Sbjct: 112 VLCGNKVDVKERK 124

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 50.4 bits (119), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 37/143 (25%), Positives = 63/143 (44%), Gaps = 17/143 (11%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  +  V+VD   V + +WDTAGQE +  L    YRGAD  +L F + +  +++ +   W
Sbjct: 44  DFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DSW 102
Query: 83  IPE-LRHYAP----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
             E L   +P      P +++G K+D  + +           + T + +       +  Y
Sbjct: 103 RDEFLIQASPRDPENFPFVVLGNKIDFENRQ-----------VATKRAQAWCYSKNNIPY 151
Query: 138 IECSSKTQQNVKAVFDAAIKVVL 160
            E S+K   NV+  F    +  L
Sbjct: 152 FETSAKEAINVEQAFQTIARNAL 174

>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 = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 1/73 (1%)
Query: 36  VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI 95
           +   +WDTAG E +  LR   Y  A   I+ F + S+ +Y+NV   W  +L      +PI
Sbjct: 61  IKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVP-NWHRDLVRVCENIPI 119
Query: 96  ILVGTKLDLRDDK 108
           +L G K+D+++ K
Sbjct: 120 VLCGNKVDVKERK 132

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/142 (27%), Positives = 65/142 (45%), Gaps = 19/142 (13%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKK 81
           D +   ++VD   V L ++D   Q D    LR    +  D F++ FS+  + S+  V + 
Sbjct: 59  DTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPET 118
Query: 82  WIPELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG--SPAY 137
            +  LR   P   +P+ILVG K DL   ++  +             EE R L G  S  +
Sbjct: 119 LL-RLRAGRPHHDLPVILVGNKSDLARSREVSL-------------EEGRHLAGTLSCKH 164
Query: 138 IECSSKTQQNVKAVFDAAIKVV 159
           IE S+    N + +F+ A++ +
Sbjct: 165 IETSAALHHNTRELFEGAVRQI 186

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/143 (25%), Positives = 63/143 (44%), Gaps = 17/143 (11%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
           D  +  V+VD   V + +WDTAG E +  L    YRGAD  +L F + +  +++ +   W
Sbjct: 44  DFLTKEVMVDDRLVTMQIWDTAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DSW 102
Query: 83  IPE-LRHYAP----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
             E L   +P      P +++G K+DL + +           + T + +       +  Y
Sbjct: 103 RDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPY 151
Query: 138 IECSSKTQQNVKAVFDAAIKVVL 160
            E S+K   NV+  F    +  L
Sbjct: 152 FETSAKEAINVEQAFQTIARNAL 174

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 12/135 (8%)
Query: 24  NFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI 83
            +  ++VVDG   +L ++D   Q+    L        D +++ +S+  K S+E  ++  +
Sbjct: 37  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 96
Query: 84  PELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
              R      VPIILVG K DL   ++  +D   A  +           +    +IE S+
Sbjct: 97  QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-----------VFDCKFIETSA 145
Query: 143 KTQQNVKAVFDAAIK 157
               NV+A+F+  ++
Sbjct: 146 ALHHNVQALFEGVVR 160

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 12/135 (8%)
Query: 24  NFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI 83
            +  ++VVDG   +L ++D   Q+    L        D +++ +S+  K S+E  ++  +
Sbjct: 42  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 101
Query: 84  PELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
              R      VPIILVG K DL   ++  +D   A  +           +    +IE S+
Sbjct: 102 QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-----------VFDCKFIETSA 150
Query: 143 KTQQNVKAVFDAAIK 157
               NV+A+F+  ++
Sbjct: 151 ALHHNVQALFEGVVR 165

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/137 (24%), Positives = 62/137 (45%), Gaps = 12/137 (8%)
Query: 24  NFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWI 83
            +  ++VVDG   +L ++D   Q+    L        D +++ +S+  K S+E  ++  +
Sbjct: 42  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 101
Query: 84  PELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
              R      VPIILVG K DL   ++  +D   A  +           +    +IE S+
Sbjct: 102 QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-----------VFDCKFIETSA 150
Query: 143 KTQQNVKAVFDAAIKVV 159
               NV+A+F+  ++ +
Sbjct: 151 ALHHNVQALFEGVVRQI 167

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 16/139 (11%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR-GADVFILAFSLISKASY 75
           Y PT+ + F+  + V+G   +L L DTAGQ++Y+ + P +Y    + +IL +S+ S  S+
Sbjct: 30  YDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYS-IFPQTYSIDINGYILVYSVTSIKSF 88
Query: 76  ENVAKKWIPELRHYAPGV--PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E V K    +L      V  PI+LVG K DL  ++           I+  +G+ L +   
Sbjct: 89  E-VIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAES-W 136
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K  Q    VF
Sbjct: 137 NAAFLESSAKENQTAVDVF 155

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 16/139 (11%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR-GADVFILAFSLISKASY 75
           Y PT+ + F+  + V+G   +L L DTAGQ++Y+ + P +Y    + +IL +S+ S  S+
Sbjct: 35  YDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYS-IFPQTYSIDINGYILVYSVTSIKSF 93
Query: 76  ENVAKKWIPELRHYAPGV--PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E V K    +L      V  PI+LVG K DL  ++           I+  +G+ L +   
Sbjct: 94  E-VIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAES-W 141
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K  Q    VF
Sbjct: 142 NAAFLESSAKENQTAVDVF 160

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 16/139 (11%)
Query: 17  YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR-GADVFILAFSLISKASY 75
           Y PT+ + F+  + V+G   +L L DTAGQ++Y+ + P +Y    + +IL +S+ S  S+
Sbjct: 35  YDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYS-IFPQTYSIDINGYILVYSVTSIKSF 93
Query: 76  ENVAKKWIPELRHYAPGV--PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E V K    +L      V  PI+LVG K DL  ++           I+  +G+ L +   
Sbjct: 94  E-VIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAES-W 141
Query: 134 SPAYIECSSKTQQNVKAVF 152
           + A++E S+K  Q    VF
Sbjct: 142 NAAFLESSAKENQTAVDVF 160

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 38/142 (26%), Positives = 65/142 (45%), Gaps = 19/142 (13%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKK 81
           D +   ++VD   V L ++D   Q D    L+    +  D F++ FS+  + S+  V + 
Sbjct: 38  DTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPET 97
Query: 82  WIPELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG--SPAY 137
            +  LR   P   +P+ILVG K DL   ++  +             EE R L G  S  +
Sbjct: 98  LL-RLRAGRPHHDLPVILVGNKSDLARSREVSL-------------EEGRHLAGTLSCKH 143
Query: 138 IECSSKTQQNVKAVFDAAIKVV 159
           IE S+    N + +F+ A++ +
Sbjct: 144 IETSAALHHNTRELFEGAVRQI 165

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 35/135 (25%), Positives = 62/135 (45%), Gaps = 14/135 (10%)
Query: 23  DNFSANVVVDGSTVNLGLWDT--AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK 80
           D +   + VDG    L + DT  A + D +  +    +G   +++ +S+  + S+E+ ++
Sbjct: 39  DVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASE 98
Query: 81  KWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIE 139
             I   R H A  VPIILVG K DL   ++  ++   A  +           +    +IE
Sbjct: 99  LRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAV-----------VFDCKFIE 147
Query: 140 CSSKTQQNVKAVFDA 154
            S+  Q NV  +F+ 
Sbjct: 148 TSATLQHNVAELFEG 162

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 38/142 (26%), Positives = 65/142 (45%), Gaps = 19/142 (13%)
Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKK 81
           D +   ++VD   V L ++D   Q D    L+    +  D F++ FS+  + S+  V + 
Sbjct: 48  DTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPET 107
Query: 82  WIPELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG--SPAY 137
            +  LR   P   +P+ILVG K DL   ++  +             EE R L G  S  +
Sbjct: 108 LL-RLRAGRPHHDLPVILVGNKSDLARSREVSL-------------EEGRHLAGTLSCKH 153
Query: 138 IECSSKTQQNVKAVFDAAIKVV 159
           IE S+    N + +F+ A++ +
Sbjct: 154 IETSAALHHNTRELFEGAVRQI 175

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 46.2 bits (108), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 71/137 (51%), Gaps = 16/137 (11%)
Query: 19  PTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR-GADVFILAFSLISKASYEN 77
           PT+ + F+  + V+G   +L L DTAGQ++Y+ + P +Y    + +IL +S+ S  S+E 
Sbjct: 35  PTIENTFTKLITVNGQEYHLQLVDTAGQDEYS-IFPQTYSIDINGYILVYSVTSIKSFE- 92
Query: 78  VAKKWIPELRHYAPGV--PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           V K    +L      V  PI+LVG K DL  ++           I+  +G+ L +   + 
Sbjct: 93  VIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAES-WNA 141
Query: 136 AYIECSSKTQQNVKAVF 152
           A++E S+K  Q    VF
Sbjct: 142 AFLESSAKENQTAVDVF 158

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 38/72 (52%)
Query: 38  LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIIL 97
           L +WD AG+E++    P       +++  + L    +  +  K W+  ++  A   P+IL
Sbjct: 56  LNVWDFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVIL 115
Query: 98  VGTKLDLRDDKQ 109
           VGT LD+ D+KQ
Sbjct: 116 VGTHLDVSDEKQ 127

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 38/72 (52%)
Query: 38  LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIIL 97
           L +WD AG+E++    P       +++  + L    +  +  K W+  ++  A   P+IL
Sbjct: 58  LNVWDFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVIL 117
Query: 98  VGTKLDLRDDKQ 109
           VGT LD+ D+KQ
Sbjct: 118 VGTHLDVSDEKQ 129

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	179
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	3e-91
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-88
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	6e-88
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-84
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-84
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	4e-84
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-82
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	8e-82
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	4e-80
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	6e-80
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	9e-79
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-78
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	8e-78
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-77
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-39
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-37
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-37
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	5e-37
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	8e-37
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-36
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	3e-35
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	3e-35
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	5e-35
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-34
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	4e-34
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	4e-34
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-34
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-33
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	5e-33
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	7e-33
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-32
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-32
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	3e-32
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	7e-32
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	7e-32
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	8e-32
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	3e-31
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	3e-31
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	6e-31
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-30
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	9e-30
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-29
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	2e-29
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	4e-29
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	6e-29
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	7e-29
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-28
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	2e-28
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-28
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-28
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	3e-28
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-28
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-28
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	4e-28
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	4e-28
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	5e-28
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	5e-28
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	5e-28
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	7e-28
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	7e-28
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	9e-28
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	9e-28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	9e-28
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	9e-28
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	9e-28
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-27
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-27
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-27
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-27
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-27
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	3e-27
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-27
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	5e-27
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	6e-27
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-26
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-26
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-26
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	5e-26
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-25
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-25
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-24
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-23
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-23
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-21
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	1e-13
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	4e-10
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	8e-06

>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 =  264 bits (676), Expect = 3e-91
 Identities = 125/168 (74%), Positives = 139/168 (82%), Gaps = 6/168 (3%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY+PTVFDNFSANV VDG  VNLGLWDTAGQEDY+RLRPLSYRGAD+F+LAFSLISKAS
Sbjct: 36  TDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKAS 95

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           YENV KKW+PELR +AP VPI+LVGTKLDLRDDK +  DH     IT+ QGEELRK IG+
Sbjct: 96  YENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTN--VITSTQGEELRKQIGA 153

Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK----KKKKKSHRACSI 178
            AYIECSSKTQQNVKAVFD AIKVVLQPP++K    ++K      CSI
Sbjct: 154 AAYIECSSKTQQNVKAVFDTAIKVVLQPPRRKEVPRRRKNHRRSGCSI 201

>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 =  255 bits (653), Expect = 3e-88
 Identities = 136/159 (85%), Positives = 150/159 (94%), Gaps = 2/159 (1%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+      DYVPTVFDNFSANVVV+G+TVNLGLWDTAGQEDYNRLRPLSYRGADVF
Sbjct: 24  LLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVF 83

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
           ILAFSLISKASYENV+KKWIPEL+HYAPGVPI+LVGTKLDLRDDKQFFIDHPGAVPITT 
Sbjct: 84  ILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTV 143

Query: 124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP 162
           QGEEL+KLIG+PAYIECSSK+Q+NVK VFDAAI+VVLQP
Sbjct: 144 QGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVLQP 182

>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 =  255 bits (653), Expect = 6e-88
 Identities = 61/164 (37%), Positives = 95/164 (57%), Gaps = 10/164 (6%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++  +S G+    YVPTVF+NFS  +        L LWDTAGQE+Y+RLRPLSY  +DV 
Sbjct: 39  LLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVV 98

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA 123
           +L F++ ++ S++N++ KW PE++HY      +LVG K+DLR D            +T  
Sbjct: 99  LLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGS--------DDVTKQ 150

Query: 124 QGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
           +G++L + +G  AYIE SS  +  +  VF+ ++  +       K
Sbjct: 151 EGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNKPVPK 194

>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 =  246 bits (631), Expect = 2e-84
 Identities = 67/163 (41%), Positives = 99/163 (60%), Gaps = 4/163 (2%)

Query: 7   ICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFI 64
           +  ++ G   + Y PTVF+ +  N+ V G  V+L +WDTAGQ+DY+RLRPL Y  A V +
Sbjct: 51  LMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL 110

Query: 65  LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITT 122
           L F + S  S++N+  +W PE+ H+   VPII+VG K DLR DK         G  P+T 
Sbjct: 111 LCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTY 170

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQ 165
            +G+E+ + +G+ AY+ECS++   NV AVF  A +V L    +
Sbjct: 171 HRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSRGR 213

>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 =  246 bits (630), Expect = 2e-84
 Identities = 72/165 (43%), Positives = 103/165 (62%), Gaps = 4/165 (2%)

Query: 7   ICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFI 64
           +  +S  +  + YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV +
Sbjct: 42  LIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL 101

Query: 65  LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP--GAVPITT 122
           + FS+ S  S EN+ +KW+PE++H+ P VPIILV  K DLR D+    +       P+ T
Sbjct: 102 MCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRT 161

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
             G  +   I +  Y+ECS+KT++ V+ VF+ A +  LQ     +
Sbjct: 162 DDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKRYGSQ 206

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  245 bits (628), Expect = 4e-84
 Identities = 74/166 (44%), Positives = 111/166 (66%), Gaps = 4/166 (2%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+      +Y+PT FDNFSA V VDG  V L L DTAGQ+++++LRPL Y   D+F
Sbjct: 36  LVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIF 95

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPIT 121
           +L FS++S +S++NV++KW+PE+R + P  PIILVGT+ DLR+D +  I  D     P+ 
Sbjct: 96  LLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVP 155

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
               + L + I + +YIECS+ TQ+N+K VFDAAI   +Q    ++
Sbjct: 156 EEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSDTQQ 201

>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 =  241 bits (617), Expect = 2e-82
 Identities = 92/159 (57%), Positives = 115/159 (72%), Gaps = 4/159 (2%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+      +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DVF
Sbjct: 46  LLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVF 105

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FSL+S AS+ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT
Sbjct: 106 LICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPIT 165

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL 160
             QG  + K IG+  Y+ECS+ TQ+ +K VFD AI+ VL
Sbjct: 166 YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>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 =  240 bits (613), Expect = 8e-82
 Identities = 72/159 (45%), Positives = 104/159 (65%), Gaps = 4/159 (2%)

Query: 7   ICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFI 64
           +  +S  +  + YVPTVF+N+ A++ VDG  V L LWDTAGQEDY+RLRPLSY   DV +
Sbjct: 42  LIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL 101

Query: 65  LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITT 122
           + FS+ S  S EN+ +KW PE++H+ P VPIILVG K DLR D+    +       P+ +
Sbjct: 102 MCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRS 161

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            +G ++   I +  Y+ECS+KT++ V+ VF+ A +  LQ
Sbjct: 162 EEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGLQ 200

>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 =  235 bits (600), Expect = 4e-80
 Identities = 95/165 (57%), Positives = 116/165 (70%), Gaps = 4/165 (2%)

Query: 7   ICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFI 64
           + +Y+      +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV +
Sbjct: 22  LISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL 81

Query: 65  LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITT 122
           + FSL+S AS+ENV  KW PE+RH+ P  PIILVGTKLDLRDDK            PIT 
Sbjct: 82  ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITY 141

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
            QG  + K IG+  Y+ECS+ TQ+ +K VFD AI+ VL PP  KK
Sbjct: 142 PQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 186

>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 =  235 bits (601), Expect = 6e-80
 Identities = 52/161 (32%), Positives = 91/161 (56%), Gaps = 5/161 (3%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++  ++     ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  
Sbjct: 44  LLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV 103

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPIT 121
           ++ F +    + ++V KKW  E++ + P   ++LVG K DLR D    ++  +    P++
Sbjct: 104 LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVS 163

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVVLQ 161
             QG  + K IG+  YIECS+   +N V+ +F  A    + 
Sbjct: 164 YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN 204

>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 =  236 bits (604), Expect = 9e-79
 Identities = 91/158 (57%), Positives = 111/158 (70%), Gaps = 4/158 (2%)

Query: 10  YSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAF 67
           Y+      +Y+PTVFDN+SANV+VDG  VNLGLWDTAG EDY+RLRPLSY   DVF++ F
Sbjct: 175 YTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICF 234

Query: 68  SLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPITTAQG 125
           SL+S AS+ +V  KW PE+RH+ P  PIILVGTKLDLRDDK            PIT  QG
Sbjct: 235 SLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG 294

Query: 126 EELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP 163
             + K IG+  Y+ECS+ TQ+ +K VFD AI+ VL PP
Sbjct: 295 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 332

>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 =  231 bits (590), Expect = 2e-78
 Identities = 77/160 (48%), Positives = 113/160 (70%), Gaps = 4/160 (2%)

Query: 7   ICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFI 64
           + +Y+     ++YVPTVFD+++ +V V G    LGL+DTAGQEDY+RLRPLSY   DVF+
Sbjct: 35  LMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFL 94

Query: 65  LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPITT 122
           + FS+++ AS++NV ++W+PEL+ YAP VP +L+GT++DLRDD +     +     PI  
Sbjct: 95  ICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICV 154

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP 162
            QG++L K IG+  Y+ECS+ TQ+ +K VFD AI  +L P
Sbjct: 155 EQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILTP 194

>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 =  229 bits (585), Expect = 8e-78
 Identities = 52/161 (32%), Positives = 91/161 (56%), Gaps = 5/161 (3%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++  ++     ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  
Sbjct: 23  LLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV 82

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPIT 121
           ++ F +    + ++V KKW  E++ + P   ++LVG K DLR D    ++  +    P++
Sbjct: 83  LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVS 142

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVVLQ 161
             QG  + K IG+  YIECS+   +N V+ +F  A    + 
Sbjct: 143 YDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN 183

>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 =  229 bits (585), Expect = 2e-77
 Identities = 52/170 (30%), Positives = 89/170 (52%), Gaps = 5/170 (2%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++   +     + YVPTVF+N++A +  +   V L LWDT+G   Y+ +RPL Y  +D  
Sbjct: 43  MLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV 102

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID--HPGAVPIT 121
           +L F +    + ++  KKW  E+  Y P   ++L+G K DLR D    ++  H    PI+
Sbjct: 103 LLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPIS 162

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQ-NVKAVFDAAIKVVLQPPKQKKKKK 170
             QG  + K +G+  Y+E S+ T + ++ ++F  A  + L  P    +K 
Sbjct: 163 YEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKPSPLPQKS 212

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  132 bits (334), Expect = 2e-39
 Identities = 37/166 (22%), Positives = 80/166 (48%), Gaps = 18/166 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y PTV + +S  V +     +L L DTAGQ++Y+ L      G   ++L +S+ S  S+
Sbjct: 52  GYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSF 111

Query: 76  ENVAKKWIPE-LRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + + +    +    +    VP++LVG K DL  +++          +   +G++L +  G
Sbjct: 112 QVI-ESLYQKLHEGHGKTRVPVVLVGNKADLSPERE----------VQAVEGKKLAESWG 160

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
           +  ++E S++  Q  + +F   I+ + +      ++++    C ++
Sbjct: 161 AT-FMESSARENQLTQGIFTKVIQEIARVENSYGQERR----CHLM 201

>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 =  126 bits (319), Expect = 2e-37
 Identities = 42/159 (26%), Positives = 72/159 (45%), Gaps = 14/159 (8%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y PT+ + F+  + V+G   +L L DTAGQ++Y+          + +IL +S+ S  S+
Sbjct: 34  SYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSF 93

Query: 76  ENVAKKWIPE-LRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E + K    + L       +PI+LVG K DL  ++           I+  +G+ L +   
Sbjct: 94  EVI-KVIHGKLLDMVGKVQIPIMLVGNKKDLHMERV----------ISYEEGKALAESWN 142

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
           +  ++E S+K  Q    VF   I    +      + K S
Sbjct: 143 AA-FLESSAKENQTAVDVFRRIILEAEKMDGACSQGKSS 180

>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 =  126 bits (320), Expect = 2e-37
 Identities = 39/176 (22%), Positives = 76/176 (43%), Gaps = 24/176 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y+PT+ D +   +  D S   L + DT G   +  ++ LS      FIL FS+ SK S 
Sbjct: 36  TYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSL 95

Query: 76  ENVAK--KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E +    K I +++     +P++LVG K D    ++          + T + + + +   
Sbjct: 96  EELGPIYKLIVQIKGSVEDIPVMLVGNKCDE-TQRE----------VDTREAQAVAQEWK 144

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ----------PPKQKKKKKKSHRACSIL 179
              ++E S+K   NVK +F   + +  +             ++K+  +    C+++
Sbjct: 145 CA-FMETSAKMNYNVKELFQELLTLETRRNMSLNIDGKRSGKQKRTDRVKGKCTLM 199

>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 =  125 bits (316), Expect = 5e-37
 Identities = 53/171 (30%), Positives = 89/171 (52%), Gaps = 20/171 (11%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 32  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 91

Query: 76  ENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++   +  +++       VP++LVG K DL   +           + T Q ++L +  G
Sbjct: 92  EDI-HHYREQIKRVKDSEDVPMVLVGNKCDL-PSRT----------VDTKQAQDLARSYG 139

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ-----PPKQKKKKKKSHRACSIL 179
            P +IE S+KT+Q V   F   ++ + +         KKKKKKS   C I+
Sbjct: 140 IP-FIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKSKTKCVIM 189

>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 =  125 bits (316), Expect = 8e-37
 Identities = 49/177 (27%), Positives = 78/177 (44%), Gaps = 25/177 (14%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S+
Sbjct: 42  DYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF 101

Query: 76  ENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
                 +  ++        VP +LVG K DL D +Q          ++  + +   +   
Sbjct: 102 AAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWN 150

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ-----------PPKQKKKKKKSHRACSIL 179
              Y+E S+KT+ NV  VF   ++ +               K+K   K+    C IL
Sbjct: 151 VN-YVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKKKRKSLAKRIRERCCIL 206

>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 =  124 bits (313), Expect = 1e-36
 Identities = 41/160 (25%), Positives = 71/160 (44%), Gaps = 22/160 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y+PTV D +   +  D S   L + DT G   +  ++ LS      FIL +S+ S+ S 
Sbjct: 31  SYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSL 90

Query: 76  ENVAKKW---IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           E + K     I E++     +PI+LVG K D    ++          + +++ E L +  
Sbjct: 91  EEL-KPIYEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALARTW 139

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
               ++E S+K   NVK +F   + +        K++  S
Sbjct: 140 KCA-FMETSAKLNHNVKELFQELLNLE-------KRRTVS 171

>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 =  119 bits (302), Expect = 3e-35
 Identities = 33/139 (23%), Positives = 58/139 (41%), Gaps = 14/139 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
                    +  ++VVDG   +L ++D   Q+    L        D +++ +S+  K S+
Sbjct: 29  PEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSF 88

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E    +   +LR       VPIILVG K DL   ++          ++  +G     +  
Sbjct: 89  EKA-SELRVQLRRARQTDDVPIILVGNKSDLVRSRE----------VSVDEGRACAVVFD 137

Query: 134 SPAYIECSSKTQQNVKAVF 152
              +IE S+    NV+A+F
Sbjct: 138 CK-FIETSAALHHNVQALF 155

>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 =  120 bits (304), Expect = 3e-35
 Identities = 45/159 (28%), Positives = 75/159 (47%), Gaps = 19/159 (11%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S+
Sbjct: 46  DYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF 105

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
                 +  ++        VP +LVG K DL D +Q          ++  + +   +   
Sbjct: 106 AAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWN 154

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
              Y+E S+KT+ NV  VF   ++ +     + +K + S
Sbjct: 155 VN-YVETSAKTRANVDKVFFDLMREI-----RARKMEDS 187

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  119 bits (301), Expect = 5e-35
 Identities = 40/144 (27%), Positives = 76/144 (52%), Gaps = 14/144 (9%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y PT+ D +   + VD S   L + DTAG E +  +R L  +    FIL +SL+++ S+
Sbjct: 31  KYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSF 90

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +++ K    ++        VP+ILVG K+DL  +++          +++++G  L +  G
Sbjct: 91  QDI-KPMRDQIIRVKRYEKVPVILVGNKVDLESERE----------VSSSEGRALAEEWG 139

Query: 134 SPAYIECSSKTQQNVKAVFDAAIK 157
            P ++E S+K++  V  +F   ++
Sbjct: 140 CP-FMETSAKSKTMVDELFAEIVR 162

>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 =  119 bits (300), Expect = 1e-34
 Identities = 41/159 (25%), Positives = 71/159 (44%), Gaps = 16/159 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D+++    VDG    L + DTAGQE++  +R    R    F+L F++  + S+
Sbjct: 37  DYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSF 96

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
             V  K   ++         P++LVG K DL   +Q          +  ++         
Sbjct: 97  NEV-GKLFTQILRVKDRDDFPVVLVGNKADLESQRQ----------VPRSEASAFGASHH 145

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
              Y E S+K + NV   F+  ++ V +   Q+++   S
Sbjct: 146 VA-YFEASAKLRLNVDEAFEQLVRAVRK--YQEQELPPS 181

>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 =  117 bits (296), Expect = 4e-34
 Identities = 43/146 (29%), Positives = 69/146 (47%), Gaps = 14/146 (9%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS+    S+
Sbjct: 32  DYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF 91

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
                 +  ++        VP +LVG K DL D +Q          ++  + +       
Sbjct: 92  AAT-ADFREQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRADQWN 140

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVV 159
              Y+E S+KT+ NV  VF   ++ +
Sbjct: 141 VN-YVETSAKTRANVDKVFFDLMREI 165

>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 =  118 bits (297), Expect = 4e-34
 Identities = 48/159 (30%), Positives = 83/159 (52%), Gaps = 19/159 (11%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 49  EYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSF 108

Query: 76  ENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
            ++   +  +++       VP++LVG K DL   +           + T Q  EL K  G
Sbjct: 109 ADI-NLYREQIKRVKDSDDVPMVLVGNKCDL-PTRT----------VDTKQAHELAKSYG 156

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
            P +IE S+KT+Q V+  F   ++ +    +Q + KK +
Sbjct: 157 IP-FIETSAKTRQGVEDAFYTLVREI----RQYRMKKLN 190

>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 =  116 bits (294), Expect = 7e-34
 Identities = 38/149 (25%), Positives = 73/149 (48%), Gaps = 15/149 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
            Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ +++++
Sbjct: 31  KYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTF 90

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL-RKLI 132
            ++ +    ++        VP+ILVG K DL D++           +   QG+ L R+  
Sbjct: 91  NDL-QDLREQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWC 139

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
               ++E S+K++ NV  +F   ++ + +
Sbjct: 140 NCA-FLESSAKSKINVNEIFYDLVRQINR 167

>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 =  115 bits (291), Expect = 2e-33
 Identities = 44/148 (29%), Positives = 80/148 (54%), Gaps = 15/148 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +  PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S+
Sbjct: 31  ECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF 90

Query: 76  ENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E++  ++  +++       VP++LVG K DL   +           + + Q ++L +  G
Sbjct: 91  EDI-HQYREQIKRVKDSDDVPMVLVGNKSDL-AART----------VESRQAQDLARSYG 138

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            P YIE S+KT+Q V+  F   ++ + Q
Sbjct: 139 IP-YIETSAKTRQGVEDAFYTLVREIRQ 165

>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 =  114 bits (289), Expect = 5e-33
 Identities = 45/149 (30%), Positives = 75/149 (50%), Gaps = 15/149 (10%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           DY PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS+
Sbjct: 46  DYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF 105

Query: 76  ENVAKKWIPELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E+V  ++   +         P+ILV  K+DL   ++          +T  QG+E+     
Sbjct: 106 EHV-DRFHQLILRVKDRESFPMILVANKVDLMHLRK----------VTRDQGKEMATKYN 154

Query: 134 SPAYIECSSKT-QQNVKAVFDAAIKVVLQ 161
            P YIE S+K    NV   F   ++V+ Q
Sbjct: 155 IP-YIETSAKDPPLNVDKTFHDLVRVIRQ 182

>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 =  115 bits (289), Expect = 7e-33
 Identities = 38/171 (22%), Positives = 74/171 (43%), Gaps = 23/171 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGL---WDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           D      D +   ++VDG +  + L   W+  G+ ++  L     +  D +++ +S+  +
Sbjct: 36  DXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDR 93

Query: 73  ASYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK 130
           AS+E    +   +LR       +PIILVG K DL   ++          ++ ++G     
Sbjct: 94  ASFEKA-SELRIQLRRARQTEDIPIILVGNKSDLVRXRE----------VSVSEGRAXAV 142

Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVV----LQPPKQKKKKKKSHRACS 177
           +     +IE S+  Q NVK +F+  ++ V        K +++     R  S
Sbjct: 143 VFDXK-FIETSAAVQHNVKELFEGIVRQVRLRRDSKEKNERRLAYQKRKES 192

>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 =  114 bits (288), Expect = 1e-32
 Identities = 38/162 (23%), Positives = 73/162 (45%), Gaps = 22/162 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGL---WDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           D      D +   ++VDG +  + L   W+  G+ ++  L     +  D +++ +S+  +
Sbjct: 67  DCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDR 124

Query: 73  ASYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK 130
           AS+E    +   +LR       +PIILVG K DL   ++          ++ ++G     
Sbjct: 125 ASFEKA-SELRIQLRRARQTEDIPIILVGNKSDLVRCRE----------VSVSEGRACAV 173

Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
           +     +IE S+  Q NVK +F     +V Q   ++  K+K+
Sbjct: 174 VFDCK-FIETSAAVQHNVKELF---EGIVRQVRLRRDSKEKN 211

>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 =  114 bits (287), Expect = 2e-32
 Identities = 35/161 (21%), Positives = 70/161 (43%), Gaps = 20/161 (12%)

Query: 16  DYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDY-NRLRPLSYRGADVFILAFSLISKA 73
            + P    D +   ++VD   V L ++D   Q D    LR    +  D F++ FS+  + 
Sbjct: 51  AHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRR 110

Query: 74  SYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           S+  V  + +  LR       +P+ILVG K DL   ++          ++  +G  L   
Sbjct: 111 SFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLARSRE----------VSLEEGRHLAGT 159

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
           +    +IE S+    N + +F+ A++ +    + ++ +  +
Sbjct: 160 LSCK-HIETSAALHHNTRELFEGAVRQI----RLRRGRNHA 195

>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 =  113 bits (285), Expect = 3e-32
 Identities = 40/158 (25%), Positives = 71/158 (44%), Gaps = 20/158 (12%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y PT+   +     +D   V++ + DTAGQED    R    R  + F+L + +  + S+
Sbjct: 56  EYDPTLESTYRHQATIDDEVVSMEILDTAGQEDT-IQREGHMRWGEGFVLVYDITDRGSF 114

Query: 76  ENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           E V       L        V +ILVG K DL   +Q          ++T +GE+L   + 
Sbjct: 115 EEV-LPLKNILDEIKKPKNVTLILVGNKADLDHSRQ----------VSTEEGEKLATELA 163

Query: 134 SPAYIECSSKTQQ-NVKAVFDAAIKVVLQPPKQKKKKK 170
              + ECS+ T + N+  +F    + V    ++++  +
Sbjct: 164 CA-FYECSACTGEGNITEIFYELCREV----RRRRMVQ 196

>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 =  111 bits (281), Expect = 7e-32
 Identities = 36/161 (22%), Positives = 70/161 (43%), Gaps = 22/161 (13%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE--DYNRLRPLSYRGADVFILAFSLISKA 73
            +     D +   + VDG    L + DT   E  D +  +    +G   +++ +S+  + 
Sbjct: 32  LHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRG 91

Query: 74  SYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           S+E+   +   +LR  H A  VPIILVG K DL   ++          ++  +G     +
Sbjct: 92  SFESA-SELRIQLRRTHQADHVPIILVGNKADLARCRE----------VSVEEGRACAVV 140

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
                +IE S+  Q NV  +F+  ++ +      + +++ S
Sbjct: 141 FDCK-FIETSATLQHNVAELFEGVVRQL------RLRRRDS 174

>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 =  112 bits (282), Expect = 7e-32
 Identities = 33/153 (21%), Positives = 57/153 (37%), Gaps = 17/153 (11%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           Q+  P     F   +VVDG +  L + D  G  +            D  +  FSL  + S
Sbjct: 47  QEESPEG-GRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEIS 100

Query: 75  YENVAKKWIPELRHYAPG--VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++ V   +   L  +     VP++LVGT+  +               I  ++  +L   +
Sbjct: 101 FQTV-YNYFLRLCSFRNASEVPMVLVGTQDAISAANP--------RVIDDSRARKLSTDL 151

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQ 165
               Y E  +    NV+ VF    + V+   K+
Sbjct: 152 KRCTYYETCATYGLNVERVFQDVAQKVVALRKK 184

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  111 bits (280), Expect = 8e-32
 Identities = 31/141 (21%), Positives = 59/141 (41%), Gaps = 16/141 (11%)

Query: 16  DYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYN-RLRPLSYRGADVFILAFSLISKA 73
            +     ++     ++VD   V L ++D   Q D    L+    +  D F++ FS+  + 
Sbjct: 30  AHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRR 89

Query: 74  SYENVAKKWIPELR--HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           S+  V  + +  LR       +P+ILVG K DL   ++          ++  +G  L   
Sbjct: 90  SFSKV-PETLLRLRAGRPHHDLPVILVGNKSDLARSRE----------VSLEEGRHLAGT 138

Query: 132 IGSPAYIECSSKTQQNVKAVF 152
           +    +IE S+    N + +F
Sbjct: 139 LSCK-HIETSAALHHNTRELF 158

>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 =  110 bits (277), Expect = 3e-31
 Identities = 45/148 (30%), Positives = 65/148 (43%), Gaps = 13/148 (8%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +DY  T+  D     + V+   V L LWDTAGQE+++ +    YRGA   +L FS   + 
Sbjct: 32  KDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRE 91

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S+E +   W  ++      +P  LV  K+DL DD            I   + E L K + 
Sbjct: 92  SFEAI-SSWREKVVAEVGDIPTALVQNKIDLLDDSC----------IKNEEAEGLAKRLK 140

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
              +   S K   NV  VF    +  LQ
Sbjct: 141 LR-FYRTSVKEDLNVSEVFKYLAEKHLQ 167

>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 =  110 bits (278), Expect = 3e-31
 Identities = 37/147 (25%), Positives = 69/147 (46%), Gaps = 18/147 (12%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
           +Y P + D +S+   VD   V+L + DTA  +   R        A  F++ +S+ S+ S+
Sbjct: 49  EYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTP-RNCERYLNWAHAFLVVYSVDSRQSF 107

Query: 76  ENVAKKWIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           ++    ++  L  +A      +P +L+G KLD+   +Q          +T A+G  L   
Sbjct: 108 DSS-SSYLELLALHAKETQRSIPALLLGNKLDMAQYRQ----------VTKAEGVALAGR 156

Query: 132 IGSPAYIECSSKTQ-QNVKAVFDAAIK 157
            G   + E S+    ++V+ VF  A++
Sbjct: 157 FGCL-FFEVSACLDFEHVQHVFHEAVR 182

>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 =  109 bits (275), Expect = 6e-31
 Identities = 34/159 (21%), Positives = 60/159 (37%), Gaps = 22/159 (13%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           Q    T  + +   ++VDG T  + + + AG  D           AD  I  FSL  + S
Sbjct: 33  QVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENS 87

Query: 75  YENVAKKWIPELRHYAP----GVPIILVGT--KLDLRDDKQFFIDHPGAVPITTAQGEEL 128
           ++ V  +   +L         G+ + LVGT  ++     +           +  A+   L
Sbjct: 88  FQAV-SRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRV----------VGDARARAL 136

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
              +   +Y E  +    NV  VF    + V+   KQ++
Sbjct: 137 XADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQ 175

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  108 bits (273), Expect = 1e-30
 Identities = 45/158 (28%), Positives = 72/158 (45%), Gaps = 13/158 (8%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y+ T+  D     V ++G  V L +WDTAGQE +  +    YRG    I+ + + S  
Sbjct: 36  GSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAE 95

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S+ NV K+W+ E+      V  ILVG K D  + K           + T    +    +G
Sbjct: 96  SFVNV-KRWLHEINQNCDDVCRILVGNKNDDPERKV----------VETEDAYKFAGQMG 144

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKK 171
                E S+K   NV+ +F+   ++VL+  K    K++
Sbjct: 145 IQ-LFETSAKENVNVEEMFNCITELVLRAKKDNLAKQQ 181

>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 =  107 bits (269), Expect = 9e-30
 Identities = 39/150 (26%), Positives = 70/150 (46%), Gaps = 13/150 (8%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
            +    T+  D     + + G  V L +WDTAGQE +  +    YR A+  ILA+ +  +
Sbjct: 55  SERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKR 114

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           +S+ +V   WI ++R YA   +  +L+G K DL + ++          ++ A+ + L + 
Sbjct: 115 SSFLSV-PHWIEDVRKYAGSNIVQLLIGNKSDLSELRE----------VSLAEAQSLAEH 163

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
                 IE S+K   NV+  F      ++ 
Sbjct: 164 YDILCAIETSAKDSSNVEEAFLRVATELIM 193

>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 =  107 bits (270), Expect = 1e-29
 Identities = 37/153 (24%), Positives = 65/153 (42%), Gaps = 15/153 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + YV T+  +        +   +   +WDTAGQE +  LR   Y  A   I+ F + S+ 
Sbjct: 42  KKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRV 101

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +Y+NV   W  +L      +PI+L G K+D++D K              A+     +   
Sbjct: 102 TYKNV-PNWHRDLVRVCENIPIVLCGNKVDIKDRKV------------KAKSIVFHRKKN 148

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
              Y + S+K+  N +  F    + ++  P  +
Sbjct: 149 LQ-YYDISAKSNYNFEKPFLWLARKLIGDPNLE 180

>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 =  106 bits (267), Expect = 2e-29
 Identities = 44/160 (27%), Positives = 73/160 (45%), Gaps = 14/160 (8%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y  T+  D  S  + ++  TV L LWDTAG E +  L P   R + V ++ + + +  
Sbjct: 43  NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVN 102

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S++    KWI ++R      V I+LVG K DL D +Q          ++  +GE   K +
Sbjct: 103 SFQQT-TKWIDDVRTERGSDVIIMLVGNKTDLADKRQ----------VSIEEGERKAKEL 151

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
               +IE S+K   NVK +F      +      + + ++ 
Sbjct: 152 NVM-FIETSAKAGYNVKQLFRRVAAALPGMESTQDRSRED 190

>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 =  104 bits (262), Expect = 4e-29
 Identities = 36/149 (24%), Positives = 75/149 (50%), Gaps = 14/149 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+     +  + + G  VNL +WDTAGQE ++ L P+ YR ++  IL + +  + 
Sbjct: 33  DKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDED 92

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S++ V K W+ ELR      + + +VG K+DL  ++           ++  + E   + +
Sbjct: 93  SFQKV-KNWVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESV 141

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G+  +   S+K  + ++ +F    K +++
Sbjct: 142 GAK-HYHTSAKQNKGIEELFLDLCKRMIE 169

>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 =  104 bits (262), Expect = 6e-29
 Identities = 47/154 (30%), Positives = 77/154 (50%), Gaps = 14/154 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +    T+    FS  + V+ +TV   +WDTAGQE Y+ L P+ YRGA   I+ F + ++A
Sbjct: 39  EFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQA 98

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+E   KKW+ EL+    P + + L G K DL D ++          +T    +   +  
Sbjct: 99  SFERA-KKWVQELQAQGNPNMVMALAGNKSDLLDARK----------VTAEDAQTYAQEN 147

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
           G   ++E S+KT  NVK +F    + + +    +
Sbjct: 148 GLF-FMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 =  104 bits (261), Expect = 7e-29
 Identities = 46/140 (32%), Positives = 69/140 (49%), Gaps = 14/140 (10%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y  T+  D  S  + ++  TV L LWDTAGQE +  L P   R + V ++ + + +  
Sbjct: 41  NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTN 100

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+     KWI ++R      V I+LVG K DL D +Q          ++T +GE   K +
Sbjct: 101 SFHQT-SKWIDDVRTERGSDVIIMLVGNKTDLSDKRQ----------VSTEEGERKAKEL 149

Query: 133 GSPAYIECSSKTQQNVKAVF 152
               +IE S+K   NVK +F
Sbjct: 150 NVM-FIETSAKAGYNVKQLF 168

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  103 bits (260), Expect = 1e-28
 Identities = 45/154 (29%), Positives = 71/154 (46%), Gaps = 17/154 (11%)

Query: 15  QDYVPTV-FDNFSANVVVDGS-TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           Q Y  T+  D  +  V VDG     + +WDTAGQE +  L    YRGAD  +L + + + 
Sbjct: 35  QQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNA 94

Query: 73  ASYENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE 127
           +S+EN+ K W  E   +A        P +++G K+D  + K+          ++    +E
Sbjct: 95  SSFENI-KSWRDEFLVHANVNSPETFPFVILGNKIDAEESKK---------IVSEKSAQE 144

Query: 128 LRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           L K +G       S+K   NV   F+   +  LQ
Sbjct: 145 LAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 178

>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 =  102 bits (257), Expect = 2e-28
 Identities = 42/149 (28%), Positives = 70/149 (46%), Gaps = 14/149 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +    T+     +  V +D +TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ 
Sbjct: 33  EFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEE 92

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+    K W+ EL+  A P + I L G K DL + +           +   + +      
Sbjct: 93  SFARA-KNWVKELQRQASPNIVIALSGNKADLANKRA----------VDFQEAQSYADDN 141

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
               ++E S+KT  NV  +F A  K + +
Sbjct: 142 SLL-FMETSAKTSMNVNEIFMAIAKKLPK 169

>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 =  103 bits (260), Expect = 2e-28
 Identities = 36/155 (23%), Positives = 67/155 (43%), Gaps = 15/155 (9%)

Query: 15  QDYVPT--VFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           ++Y  T    ++    +   G+ +   +WDTAGQE    L+ + Y GA   IL F + S+
Sbjct: 38  KNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSR 97

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            + +N+  +W+ E +       PI++   K+D+++ ++          I+     E+ K 
Sbjct: 98  ITCQNL-ARWVKEFQAVVGNEAPIVVCANKIDIKNRQK----------ISKKLVMEVLKG 146

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
                Y E S+KT  N    F    ++    P   
Sbjct: 147 KNYE-YFEISAKTAHNFGLPFLHLARIFTGRPDLI 180

>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 =  103 bits (259), Expect = 3e-28
 Identities = 38/154 (24%), Positives = 69/154 (44%), Gaps = 14/154 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            D   T+  +  +  V++  + V   +WDTAG E Y  +    YRGA   +L F L    
Sbjct: 52  HDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQ 111

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +Y  V ++W+ EL  +A   + ++LVG K DL   ++          + T +     +  
Sbjct: 112 TYAVV-ERWLKELYDHAEATIVVMLVGNKSDLSQARE----------VPTEEARMFAENN 160

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
           G   ++E S+    NV+  F+  +K +     ++
Sbjct: 161 GLL-FLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>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 =  103 bits (259), Expect = 3e-28
 Identities = 40/155 (25%), Positives = 71/155 (45%), Gaps = 14/155 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
                T+  D     V ++G  V L +WDTAGQE +  +    YR A+  IL + +  + 
Sbjct: 53  PGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEE 112

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+  +  +W+ E+  YA   V  +LVG K+DL + ++          ++  + EE  +  
Sbjct: 113 SFRCL-PEWLREIEQYASNKVITVLVGNKIDLAERRE----------VSQQRAEEFSEAQ 161

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
               Y+E S+K   NV+ +F      ++   +Q  
Sbjct: 162 DMY-YLETSAKESDNVEKLFLDLACRLISEARQNT 195

>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 =  102 bits (257), Expect = 3e-28
 Identities = 45/153 (29%), Positives = 76/153 (49%), Gaps = 18/153 (11%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
                T+  +  + ++ VDG  V + +WDTAGQE +  LR   YRG+D  +L FS+    
Sbjct: 34  TQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQ 93

Query: 74  SYENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
           S++N+   W  E  +YA        P +++G K+D+  ++Q          ++T + +  
Sbjct: 94  SFQNL-SNWKKEFIYYADVKEPESFPFVILGNKIDI-SERQ----------VSTEEAQAW 141

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            +  G   Y E S+K   NV A F+ A++ VL 
Sbjct: 142 CRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 174

>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 =  103 bits (258), Expect = 3e-28
 Identities = 44/149 (29%), Positives = 71/149 (47%), Gaps = 14/149 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  D     + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 60  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 119

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K           +     +E    +
Sbjct: 120 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSL 168

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G P ++E S+K   NV+  F      + +
Sbjct: 169 GIP-FLETSAKNATNVEQSFMTMAAEIKK 196

>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 =  102 bits (257), Expect = 4e-28
 Identities = 34/154 (22%), Positives = 69/154 (44%), Gaps = 14/154 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            +  PT+     +  V          +WDTAGQE ++ L P+ YRG+   ++ + +  + 
Sbjct: 50  HNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQD 109

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+  + KKW+ EL+ +    + + + G K DL D ++          +     +E  + I
Sbjct: 110 SFYTL-KKWVKELKEHGPENIVMAIAGNKCDLSDIRE----------VPLKDAKEYAESI 158

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
           G+   +E S+K   N++ +F    + +      +
Sbjct: 159 GAI-VVETSAKNAINIEELFQGISRQIPPLDPHE 191

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  102 bits (257), Expect = 4e-28
 Identities = 36/149 (24%), Positives = 70/149 (46%), Gaps = 14/149 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             +  T+  +  +  V +DG  + L +WDTAGQE +  +    YRGA   +L + +  + 
Sbjct: 48  PVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRE 107

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++ ++   W+ + R ++   + I+L+G K DL   +           +   +GE   +  
Sbjct: 108 TFNHL-TSWLEDARQHSSSNMVIMLIGNKSDLESRRD----------VKREEGEAFAREH 156

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G   ++E S+KT  NV+  F    K + +
Sbjct: 157 GLI-FMETSAKTACNVEEAFINTAKEIYR 184

>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 =  102 bits (256), Expect = 5e-28
 Identities = 44/149 (29%), Positives = 71/149 (47%), Gaps = 14/149 (9%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             +V TV  +F    V      + L +WDTAGQE Y  +    YRGA  F+L + + ++ 
Sbjct: 49  PAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQE 108

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+  V + W  +++ Y+     +ILVG K DL D++           +    G  L   +
Sbjct: 109 SFAAV-QDWATQIKTYSWDNAQVILVGNKCDLEDERV----------VPAEDGRRLADDL 157

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G   + E S+K   NVK VF+  + V+ +
Sbjct: 158 GFE-FFEASAKENINVKQVFERLVDVICE 185

>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 =  102 bits (256), Expect = 5e-28
 Identities = 41/156 (26%), Positives = 70/156 (44%), Gaps = 14/156 (8%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           K D   T+  +  S  + V G  V L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 36  KDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 95

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            +Y  +   W+ + R  A   + IIL G K DL  D++          +T  +     + 
Sbjct: 96  ETYNAL-TNWLTDARMLASQNIVIILCGNKKDLDADRE----------VTFLEASRFAQE 144

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
                ++E S+ T +NV+  F    + +L   +  +
Sbjct: 145 NELM-FLETSALTGENVEEAFVQCARKILNKIESGE 179

>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 =  102 bits (257), Expect = 5e-28
 Identities = 43/150 (28%), Positives = 71/150 (47%), Gaps = 8/150 (5%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           +++   T+  D     ++VDG    L LWDTAGQE +  +    +R AD  +L + +  +
Sbjct: 54  RENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCE 113

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            S+ N+ ++W+  +   A   VPI+LVG K D+RD           VP     GE+L   
Sbjct: 114 KSFLNI-REWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQK--CVP--GHFGEKLAMT 168

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            G+  + E S+K   N+        + V +
Sbjct: 169 YGAL-FCETSAKDGSNIVEAVLHLAREVKK 197

>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 =  102 bits (256), Expect = 7e-28
 Identities = 40/163 (24%), Positives = 75/163 (46%), Gaps = 14/163 (8%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             +V TV  +F    +  +   + L +WDTAG E Y  +    YRGA  FIL + + ++ 
Sbjct: 35  PAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEE 94

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+  V + W  +++ Y+     ++LVG K D+ D++           +++ +G +L   +
Sbjct: 95  SFNAV-QDWSTQIKTYSWDNAQVLLVGNKCDMEDERV----------VSSERGRQLADHL 143

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRA 175
           G   + E S+K   NVK  F+  + V+ +   +          
Sbjct: 144 GFE-FFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVT 185

>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 =  101 bits (254), Expect = 7e-28
 Identities = 39/150 (26%), Positives = 72/150 (48%), Gaps = 14/150 (9%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
             D   T+  +  +  + V G  + L +WDTAGQE +  +    YRGA   ++ + +  +
Sbjct: 41  MADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRR 100

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           ++Y ++   W+ + R+   P   IIL+G K DL   +           +T  + ++  + 
Sbjct: 101 STYNHL-SSWLTDARNLTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEE 149

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            G   ++E S+KT +NV+  F  A K + Q
Sbjct: 150 NGLL-FLEASAKTGENVEDAFLEAAKKIYQ 178

>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 =  101 bits (253), Expect = 9e-28
 Identities = 30/134 (22%), Positives = 59/134 (44%), Gaps = 13/134 (9%)

Query: 29  VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRH 88
           V          +WDTAG E +  L P+ YRG+   I+ + +  + ++  + K W+ ELR 
Sbjct: 48  VQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KNWVRELRQ 106

Query: 89  YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN 147
           +  P + + + G K DL D ++          +     ++    I +  ++E S+K   N
Sbjct: 107 HGPPSIVVAIAGNKCDLTDVRE----------VMERDAKDYADSIHAI-FVETSAKNAIN 155

Query: 148 VKAVFDAAIKVVLQ 161
           +  +F    + +  
Sbjct: 156 INELFIEISRRIPS 169

>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 =  101 bits (255), Expect = 9e-28
 Identities = 45/155 (29%), Positives = 75/155 (48%), Gaps = 14/155 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            +   T+  +  + ++ VDG T+   +WDTAGQE Y R+    YRGA   +L + +    
Sbjct: 32  LESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHL 91

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +YENV ++W+ ELR +A   + I+LVG K DLR  +           + T +     +  
Sbjct: 92  TYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKN 140

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
               +IE S+    NV+  F   +  + +   QK+
Sbjct: 141 NLS-FIETSALDSTNVEEAFKNILTEIYRIVSQKQ 174

>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 =  101 bits (254), Expect = 9e-28
 Identities = 39/160 (24%), Positives = 77/160 (48%), Gaps = 14/160 (8%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+  +F    + +DG  + L +WDTAGQE +  +    YRGA   +L + + ++ 
Sbjct: 35  STFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEK 94

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S++N+ + WI  +  +A   V  +++G K D+ D +Q          ++  +GE+L    
Sbjct: 95  SFDNI-RNWIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKLALDY 143

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
           G   ++E S+K   NV+  F    + +     +  K   +
Sbjct: 144 GIK-FMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>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 =  101 bits (255), Expect = 9e-28
 Identities = 43/156 (27%), Positives = 73/156 (46%), Gaps = 14/156 (8%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           KQD   T+  +  S  V V G TV L +WDTAGQE +  +    YRGA   +L + + S+
Sbjct: 51  KQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSR 110

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
            +Y ++   W+ + R  A P + +IL G K DL  +++          +T  +     + 
Sbjct: 111 ETYNSL-AAWLTDARTLASPNIVVILCGNKKDLDPERE----------VTFLEASRFAQE 159

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
                ++E S+ T +NV+  F    + +L      +
Sbjct: 160 NELM-FLETSALTGENVEEAFLKCARTILNKIDSGE 194

>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 =  101 bits (255), Expect = 9e-28
 Identities = 44/149 (29%), Positives = 72/149 (48%), Gaps = 13/149 (8%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           +    TV  +F    V + G  + L +WDTAGQE +N +    YR A   IL + +  K 
Sbjct: 53  EACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKE 112

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +++++  KW+  +  YA     ++LVG KLD   D++          IT  QGE+  + I
Sbjct: 113 TFDDL-PKWMKMIDKYASEDAELLLVGNKLDCETDRE----------ITRQQGEKFAQQI 161

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
               + E S+K   NV  +F   +  +L+
Sbjct: 162 TGMRFCEASAKDNFNVDEIFLKLVDDILK 190

>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 =  101 bits (254), Expect = 1e-27
 Identities = 41/149 (27%), Positives = 72/149 (48%), Gaps = 14/149 (9%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             +V TV  +F    V      V L +WDTAGQE Y  +    YRGA  FIL + + ++ 
Sbjct: 50  PAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEE 109

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+  V + W  +++ Y+     +ILVG K D+ +++           + T +G+ L + +
Sbjct: 110 SFNAV-QDWATQIKTYSWDNAQVILVGNKCDMEEERV----------VPTEKGQLLAEQL 158

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G   + E S+K   +V+  F+  +  +  
Sbjct: 159 GFD-FFEASAKENISVRQAFERLVDAICD 186

>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 =  101 bits (254), Expect = 1e-27
 Identities = 40/146 (27%), Positives = 67/146 (45%), Gaps = 13/146 (8%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
            V +DG TV L +WDTAGQE +  +    YRG+   I+ + +  + S+  V K W+ E+ 
Sbjct: 49  TVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGV-KMWLQEID 107

Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            YA   V  +LVG K DL+D +           +     +E       P ++E S+    
Sbjct: 108 RYATSTVLKLLVGNKCDLKDKRV----------VEYDVAKEFADANKMP-FLETSALDST 156

Query: 147 NVKAVFDAAIKVVLQPPKQKKKKKKS 172
           NV+  F    + + +   Q+   + +
Sbjct: 157 NVEDAFLTMARQIKESMSQQNLNETT 182

>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 =  102 bits (255), Expect = 2e-27
 Identities = 38/160 (23%), Positives = 67/160 (41%), Gaps = 14/160 (8%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            D   T+  +  +  + ++G  +   +WDTAGQE Y  +    YRGA   ++ + +   +
Sbjct: 40  MDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSS 99

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           SYEN    W+ ELR  A   V + L+G K DL   +           + T + +   +  
Sbjct: 100 SYENC-NHWLSELRENADDNVAVGLIGNKSDLAHLRA----------VPTEESKTFAQEN 148

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
               + E S+   +NV   F+  I  + Q   + +     
Sbjct: 149 QLL-FTETSALNSENVDKAFEELINTIYQKVSKHQMDLGD 187

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  101 bits (253), Expect = 2e-27
 Identities = 44/163 (26%), Positives = 74/163 (45%), Gaps = 14/163 (8%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + Y+ T+  D     + +DG T+ L +WDTAGQE +  +    YRGA   I+ + +  + 
Sbjct: 43  ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 102

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+ NV K+W+ E+  YA   V  +LVG K DL   K           +     +E    +
Sbjct: 103 SFNNV-KQWLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSL 151

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRA 175
           G P ++E S+K   NV+  F      + +          + ++
Sbjct: 152 GIP-FLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 193

>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 =  100 bits (252), Expect = 2e-27
 Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 14/145 (9%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            +   T+  +  + ++ VDG T+   +WDTAG E Y  +    YRGA   +L + +    
Sbjct: 56  LESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHL 115

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +YENV ++W+ ELR +A   + I+LVG K DLR  +           + T +     +  
Sbjct: 116 TYENV-ERWLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKN 164

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIK 157
           G   +IE S+    NV+A F   + 
Sbjct: 165 GLS-FIETSALDSTNVEAAFQTILT 188

>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 =  100 bits (252), Expect = 3e-27
 Identities = 39/158 (24%), Positives = 67/158 (42%), Gaps = 18/158 (11%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y  T+  D  +  V+VD   V + +WDTAGQE +  L    YRGAD  +L F + +  
Sbjct: 35  NQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPN 94

Query: 74  SYENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
           +++ +   W  E    A        P +++G K+DL + +           + T + +  
Sbjct: 95  TFKTL-DSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAW 142

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
                +  Y E S+K   NV+  F    +  L+   + 
Sbjct: 143 CYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180

>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 =  100 bits (250), Expect = 4e-27
 Identities = 29/140 (20%), Positives = 56/140 (40%), Gaps = 14/140 (10%)

Query: 29  VVVDGS---TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPE 85
           + +       + L +WD AG+E++    P       +++  + L    +  +  K W+  
Sbjct: 46  IQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFN 105

Query: 86  LRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA----YIECS 141
           ++  A   P+ILVGT LD+ D+KQ            +   +EL    G PA    +   +
Sbjct: 106 IKARASSSPVILVGTHLDVSDEKQ-------RKACMSKITKELLNKRGFPAIRDYHFVNA 158

Query: 142 SKTQQNVKAVFDAAIKVVLQ 161
           ++    +  +    I   L 
Sbjct: 159 TEESDALAKLRKTIINESLN 178

>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 =  100 bits (250), Expect = 5e-27
 Identities = 42/155 (27%), Positives = 70/155 (45%), Gaps = 16/155 (10%)

Query: 20  TVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
               N     V  G  ++L LWDTAG E +  L    +R A  F+L F L ++ S+ NV 
Sbjct: 54  VYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNV- 112

Query: 80  KKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAY 137
           + WI +L+ +A      I+L G K DL D +           +   +  EL +  G P Y
Sbjct: 113 RNWISQLQMHAYSENPDIVLCGNKSDLEDQRA----------VKEEEARELAEKYGIP-Y 161

Query: 138 IECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
            E S+    N+    +  + ++++  + ++   KS
Sbjct: 162 FETSAANGTNISHAIEMLLDLIMK--RMERSVDKS 194

>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 = 99.2 bits (248), Expect = 6e-27
 Identities = 44/135 (32%), Positives = 71/135 (52%), Gaps = 13/135 (9%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELR 87
            + VDG  V L +WDTAGQE +  +    YR A   +L + + +KAS++N+ + W+ E+ 
Sbjct: 52  VLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNI-QAWLTEIH 110

Query: 88  HYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
            YA   V ++L+G K+D   ++           +    GE+L K  G P ++E S+KT  
Sbjct: 111 EYAQHDVALMLLGNKVDSAHERV----------VKREDGEKLAKEYGLP-FMETSAKTGL 159

Query: 147 NVKAVFDAAIKVVLQ 161
           NV   F A  K + +
Sbjct: 160 NVDLAFTAIAKELKR 174

>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 = 98.9 bits (247), Expect = 1e-26
 Identities = 40/162 (24%), Positives = 76/162 (46%), Gaps = 16/162 (9%)

Query: 14  KQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
             +   T+  D     + VDG+   L +WDTAGQE +  L P  YRGA   IL + +  +
Sbjct: 41  DPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRR 100

Query: 73  ASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK 130
            ++  +   W+ EL  Y     +  +LVG K+D  ++++          +   +G +  +
Sbjct: 101 DTFVKL-DNWLNELETYCTRNDIVNMLVGNKIDK-ENRE----------VDRNEGLKFAR 148

Query: 131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
                 +IE S+KT   V+  F+  ++ ++Q P   + + ++
Sbjct: 149 KHSML-FIEASAKTCDGVQCAFEELVEKIIQTPGLWESENQN 189

>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 = 98.6 bits (246), Expect = 3e-26
 Identities = 47/159 (29%), Positives = 73/159 (45%), Gaps = 20/159 (12%)

Query: 20  TVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLS---YRGADVFILAFSLISKASYE 76
                           V+L LWDTAGQE   R R L+   +R A  F+L F L S+ S+ 
Sbjct: 68  VYNAQGPNGSSGKAFKVHLQLWDTAGQE---RFRSLTTAFFRDAMGFLLMFDLTSQQSFL 124

Query: 77  NVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS 134
           NV + W+ +L+  A      I+L+G K DL D ++          +   Q  EL    G 
Sbjct: 125 NV-RNWMSQLQANAYCENPDIVLIGNKADLPDQRE----------VNERQARELADKYGI 173

Query: 135 PAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSH 173
           P Y E S+ T QNV+   +  + ++++  +Q  +K +  
Sbjct: 174 P-YFETSAATGQNVEKAVETLLDLIMKRMEQCVEKTQIP 211

>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 = 98.2 bits (245), Expect = 4e-26
 Identities = 46/161 (28%), Positives = 77/161 (47%), Gaps = 15/161 (9%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+  +F    V ++G  V L LWDTAGQE +  +    YRGA   IL + +  + 
Sbjct: 47  PSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDER 106

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++ N+ K+W   +  +A     ++LVG K D+ + +           +T  QGE L K +
Sbjct: 107 TFTNI-KQWFKTVNEHANDEAQLLLVGNKSDM-ETRV----------VTADQGEALAKEL 154

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSH 173
           G P +IE S+K   NV  +F    K++ +     K     +
Sbjct: 155 GIP-FIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGN 194

>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 = 96.5 bits (241), Expect = 5e-26
 Identities = 44/149 (29%), Positives = 75/149 (50%), Gaps = 15/149 (10%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+  +F    V ++G  V L +WDTAGQE +  +    YRGA   IL + +  + 
Sbjct: 30  PSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDER 89

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           ++ N+ K+W   +  +A     ++LVG K D+ + +           +T  QGE L K +
Sbjct: 90  TFTNI-KQWFKTVNEHANDEAQLLLVGNKSDM-ETRV----------VTADQGEALAKEL 137

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G P +IE S+K   NV  +F    K++ +
Sbjct: 138 GIP-FIESSAKNDDNVNEIFFTLAKLIQE 165

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  100 bits (249), Expect = 4e-25
 Identities = 24/150 (16%), Positives = 43/150 (28%), Gaps = 15/150 (10%)

Query: 20  TVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVA 79
              +        +        WD  GQE  +         + V++L        +  N  
Sbjct: 82  QAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS---RTDSNK- 137

Query: 80  KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIE 139
             W+  +  Y    P+I+V  K+D                I   +  E    I +  +  
Sbjct: 138 HYWLRHIEKYGGKSPVIVVMNKIDENPSYN----------IEQKKINERFPAIENR-FHR 186

Query: 140 CSSKTQQNVKAVFDAAIKVVLQPPKQKKKK 169
            S K    V+++  +    VL P       
Sbjct: 187 ISCKNGDGVESIAKSLKSAVLHPDSIYGTP 216

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 95.4 bits (238), Expect = 4e-25
 Identities = 34/174 (19%), Positives = 61/174 (35%), Gaps = 22/174 (12%)

Query: 1   MRFIYIICNYSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLW--DTAGQEDYNRLRPLSY 57
             F      +    +DY  T   +   A V +  +TV++ L+  DTAG + Y       +
Sbjct: 38  SMFTSKGSKFL---KDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYW 94

Query: 58  RGADVFILAFSLISKASYENVAKKWIPELRHYA----PGVPIILVGTKLDLRDDKQFFID 113
            G    IL F + S  S+E+  K W   L+         +  +LV  K DL   +     
Sbjct: 95  NGVYYAILVFDVSSMESFESC-KAWFELLKSARPDRERPLRAVLVANKTDLPPQRH---- 149

Query: 114 HPGAVPITTAQGEELRKLIGSPAYIECSSK-TQQNVKAVFDAAIKVVLQPPKQK 166
               V       ++         + + S+    ++  A F +      +  + K
Sbjct: 150 ---QVR--LDMAQDWATTNTLD-FFDVSANPPGKDADAPFLSIATTFYRNYEDK 197

>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 = 92.6 bits (231), Expect = 2e-24
 Identities = 33/158 (20%), Positives = 58/158 (36%), Gaps = 18/158 (11%)

Query: 15  QDYVPTV-FDNFSANVVVDG-STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           + Y  T+  D F   + + G   V L +WD  GQ    ++      GA   +L + + + 
Sbjct: 33  KQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNY 92

Query: 73  ASYENVAKKWIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
            S+EN+ + W   ++  +        + LVG K+DL   +           I   +    
Sbjct: 93  QSFENL-EDWYTVVKKVSEESETQPLVALVGNKIDLEHMRT----------IKPEKHLRF 141

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
            +  G       S+KT  +V   F      +L     K
Sbjct: 142 CQENGFS-SHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 91.8 bits (228), Expect = 1e-23
 Identities = 35/139 (25%), Positives = 62/139 (44%), Gaps = 14/139 (10%)

Query: 23  DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW 82
            N   N   +   +   +WDTAGQE Y  + PL YRGA   I+ F + +  + +   K W
Sbjct: 80  TNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRA-KTW 138

Query: 83  IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS 142
           + +L+       IILV  K+D  +  Q          +   + ++  +      +I+ S+
Sbjct: 139 VNQLKIS-SNYIIILVANKIDK-NKFQ----------VDILEVQKYAQDNNLL-FIQTSA 185

Query: 143 KTQQNVKAVFDAAIKVVLQ 161
           KT  N+K +F    + + +
Sbjct: 186 KTGTNIKNIFYMLAEEIYK 204

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score = 90.3 bits (225), Expect = 2e-23
 Identities = 36/140 (25%), Positives = 60/140 (42%), Gaps = 18/140 (12%)

Query: 28  NVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAKKWIPEL 86
            V +DG  + + LWDTAGQE + + +    YR     +  + + + AS+ ++   WI E 
Sbjct: 61  AVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSL-PAWIEEC 119

Query: 87  RHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKT 144
           + +     +P ILVG K DLR   Q          + T   ++       P   E S+K 
Sbjct: 120 KQHLLANDIPRILVGNKCDLRSAIQ----------VPTDLAQKFADTHSMP-LFETSAKN 168

Query: 145 Q---QNVKAVFDAAIKVVLQ 161
                +V+A+F      +  
Sbjct: 169 PNDNDHVEAIFMTLAHKLKS 188

>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 = 85.2 bits (211), Expect = 1e-21
 Identities = 41/140 (29%), Positives = 66/140 (47%), Gaps = 11/140 (7%)

Query: 15  QDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           ++  PT+     +  V ++  TV   +WDTAGQE +  L P  YR A   ++ + +    
Sbjct: 30  ENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQ 89

Query: 74  SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           S+    + W+ EL   A   + I LVG K+D   +        G   +   +GE+L +  
Sbjct: 90  SFIKA-RHWVKELHEQASKDIIIALVGNKIDXLQE-------GGERKVAREEGEKLAEEK 141

Query: 133 GSPAYIECSSKTQQNVKAVF 152
           G   + E S+KT +NV  VF
Sbjct: 142 GLL-FFETSAKTGENVNDVF 160

>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 = 65.8 bits (160), Expect = 1e-13
 Identities = 28/155 (18%), Positives = 51/155 (32%), Gaps = 23/155 (14%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGL----WDTAGQEDY--NRLRPLSYRGADVFILAF- 67
           Q +  T    +              L     D  G E     +  P      D F+L   
Sbjct: 112 QPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGID 171

Query: 68  -SLISKASYENVAKKWIPELRHYAPG--VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ 124
            S     ++++   K++  L +       PI++V TK D   ++           I  A 
Sbjct: 172 VSRGMNRNFDDQ-LKFVSNLYNQLAKTKKPIVVVLTKCDEGVERY----------IRDAH 220

Query: 125 GEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV 159
              L K       +E S+++  NV   F   ++++
Sbjct: 221 TFALSKK-NLQ-VVETSARSNVNVDLAFSTLVQLI 253

>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 = 55.5 bits (134), Expect = 4e-10
 Identities = 33/166 (19%), Positives = 54/166 (32%), Gaps = 32/166 (19%)

Query: 18  VPTVFDNFSANVV--VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFIL------AFSL 69
             T+F +F    +  V G      L+   GQ  YN  R L  RG D  +           
Sbjct: 54  ERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLR 113

Query: 70  ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
            +  S  N+ +            VPI++   K DL          P A+P+     E +R
Sbjct: 114 ANAESMRNMRENLAEYGLTLD-DVPIVIQVNKRDL----------PDALPV-----EMVR 157

Query: 130 KLIGSPA---YIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
            ++        +E  +   + V        ++VL      +    S
Sbjct: 158 AVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVL-----ARVAGGS 198

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 43.8 bits (103), Expect = 8e-06
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 9/98 (9%)

Query: 19  PTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-----NRLRPLSYRGADVFILAFSLISKA 73
            T+  +   + +     + L LWD  GQ+ +      + +   ++   V I  F + S  
Sbjct: 37  ATI--DVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTE 94

Query: 74  SYENVA--KKWIPELRHYAPGVPIILVGTKLDLRDDKQ 109
             +++    K + +LR Y+P   I ++  K+DL    +
Sbjct: 95  VLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDK 132

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	179
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.97
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.97
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.97
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.97
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.97
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.97
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.96
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.96
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.96
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.96
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.96
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.96
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.96
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.96
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.96
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.96
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.96
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.96
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.96
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.96
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.96
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.96
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.96
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.96
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.95
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.95
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.95
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.95
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.95
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.95
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.95
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.95
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.95
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.95
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.95
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.95
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.95
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.95
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.95
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.95
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.95
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.95
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.95
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.95
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.95
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.95
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.95
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.95
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.95
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.95
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.95
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.95
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.95
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.95
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.95
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.95
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.95
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.95
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.95
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.94
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.94
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.94
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.94
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.94
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.94
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.94
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.94
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.94
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.94
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.94
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.94
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.94
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.94
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.93
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.89
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.93
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.93
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.92
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.92
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.92
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.92
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.91
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.91
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.91
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.91
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.91
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.91
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.91
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.91
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.91
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.9
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.9
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.9
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.9
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.9
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.89
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.89
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.89
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.89
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.88
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.88
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.88
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.87
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.87
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.87
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.86
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.85
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.85
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.84
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.83
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.82
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.8
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.79
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.79
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.78
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.77
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.75
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.74
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.71
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.71
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.71
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.71
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.7
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.7
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.7
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.69
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.67
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.67
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.67
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.66
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.66
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.66
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.62
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.6
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.6
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.59
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.59
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.58
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.58
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.58
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.54
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.54
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.53
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.53
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.51
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.51
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.51
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.5
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.5
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.49
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.49
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.48
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.48
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.47
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.46
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.44
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.44
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.43
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.42
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.41
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.41
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.4
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.39
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.39
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.39
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.37
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.35
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.34
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.32
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.3
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.27
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.25
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.24
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.23
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.2
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.15
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.12
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.12
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.11
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.08
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.07
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.07
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.04
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.01
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.0
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.99
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.96
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.95
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.92
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.9
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.89
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.83
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.77
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.75
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.7
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.68
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.62
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.62
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.56
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.53
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.48
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.44
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.41
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.18
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.12
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.06
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.02
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.98
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.2
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	96.8
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.64
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.69
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	88.56
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	86.07
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	84.46
3cwq_A	209	Para family chromosome partitioning protein; alpha	84.26
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	83.78
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	82.52
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	82.26
3end_A	307	Light-independent protochlorophyllide reductase ir	80.06

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=3.2e-38  Score=232.37  Aligned_cols=147  Identities=29%  Similarity=0.474  Sum_probs=125.4

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.++|.||+|..+ .+.+..++..+.++||||+|+++|..+++.|+++++++++|||++++.||+++ ..
T Consensus        28 sLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i-~~  106 (216)
T 4dkx_A           28 SLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQT-TK  106 (216)
T ss_dssp             HHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHH-HH
Confidence            58899999999999999999554 58888899999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... +++|++|||||+|+.+++          .++.+++.++++.+++ .|+||||++|.||+++|+.|++.+.
T Consensus       107 ~~~~i~~~~~~~~piilVgNK~Dl~~~r----------~V~~~e~~~~a~~~~~-~~~e~SAktg~nV~e~F~~i~~~i~  175 (216)
T 4dkx_A          107 WIDDVRTERGSDVIIMLVGNKTDLADKR----------QVSIEEGERKAKELNV-MFIETSAKAGYNVKQLFRRVAAALP  175 (216)
T ss_dssp             HHHHHHHHHTTSSEEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTC-EEEEEBTTTTBSHHHHHHHHHHHC-
T ss_pred             HHHHHHHhcCCCCeEEEEeeccchHhcC----------cccHHHHhhHHHHhCC-eeEEEeCCCCcCHHHHHHHHHHHHH
Confidence            988887665 689999999999997755          4999999999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       176 ~  176 (216)
T 4dkx_A          176 G  176 (216)
T ss_dssp             -
T ss_pred             h
Confidence            4

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=6e-32  Score=197.61  Aligned_cols=175  Identities=71%  Similarity=1.107  Sum_probs=135.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+++.||+++.+...+.+++..+.++||||+|+++|..++..+++++|++|+|||++++.+|+.+...|
T Consensus        24 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~  103 (212)
T 2j0v_A           24 CMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKW  103 (212)
T ss_dssp             HHHHHHHHSCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCccCCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888888888999999999999999999999999999999999999999999999985589


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      +..+....++.|++||+||+|+..+.....  .....++.+++..+++.++...++++||++|.|++++|+++++.+.+.
T Consensus       104 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          104 MPELRRFAPNVPIVLVGTKLDLRDDKGYLA--DHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             HHHHHHHCTTCCEEEEEECHHHHTCHHHHH--TCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhCCCCCEEEEEeCHHhhhCccccc--cccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            999988777899999999999976432000  011134778889999999976899999999999999999999999876


Q ss_pred             chhhh----hccCCCCCcccC
Q 030337          163 PKQKK----KKKKSHRACSIL  179 (179)
Q Consensus       163 ~~~~~----~~~~~~~~c~~~  179 (179)
                      ..+++    +.+++.++|.|+
T Consensus       182 ~~~~~~~~~~~~~~~~~c~~~  202 (212)
T 2j0v_A          182 PRRKEVPRRRKNHRRSGCSIA  202 (212)
T ss_dssp             ---------------------
T ss_pred             hhhcccccccccccCCCcEEe
Confidence            55443    233334567764

>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=99.97  E-value=4.7e-30  Score=188.33  Aligned_cols=163  Identities=31%  Similarity=0.611  Sum_probs=137.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+.+.+.+++..+.++||||+|+++|..++..++++++++|+|||++++.+|+.+...|
T Consensus        42 sL~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  121 (214)
T 3q3j_B           42 AMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKW  121 (214)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHH
T ss_pred             HHHHHHhcCCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHH
Confidence            57899999999999999999988888888899999999999999999999999999999999999999999999944899


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCc-HHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~~f~~l~~~i  159 (179)
                      +..+....+++|++|||||+|+..+....  ......+.++.+++..+++.+++..++++||++|.| |+++|+++++.+
T Consensus       122 ~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~  201 (214)
T 3q3j_B          122 RTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLC  201 (214)
T ss_dssp             HHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHH
Confidence            99999888889999999999997631000  000112358889999999999987899999999998 999999999999


Q ss_pred             hCCchh
Q 030337          160 LQPPKQ  165 (179)
Q Consensus       160 ~~~~~~  165 (179)
                      ......
T Consensus       202 ~~~~~~  207 (214)
T 3q3j_B          202 LNKPSP  207 (214)
T ss_dssp             HC----
T ss_pred             hccCcC
Confidence            876543

>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=99.97  E-value=4.6e-30  Score=183.72  Aligned_cols=164  Identities=32%  Similarity=0.530  Sum_probs=133.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||.++.+...+.+++..+.+++|||||++.+..++..++++++++++|||++++.+++.+ ..|
T Consensus        19 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   97 (189)
T 4dsu_A           19 ALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI-HHY   97 (189)
T ss_dssp             HHHHHHHHSSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+....           +..+.+..+++.+++ +++++||++|.|++++|+++++.+.
T Consensus        98 ~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~~~~  165 (189)
T 4dsu_A           98 REQIKRVKDSEDVPMVLVGNKCDLPSRT-----------VDTKQAQDLARSYGI-PFIETSAKTRQGVDDAFYTLVREIR  165 (189)
T ss_dssp             HHHHHHHTTCSCCCEEEEEECTTSSSCS-----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcEEEEEECccCcccc-----------cCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            88887654  489999999999997533           677889999999998 8999999999999999999999887


Q ss_pred             CCchhh-----hhccCCCCCcccC
Q 030337          161 QPPKQK-----KKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~-----~~~~~~~~~c~~~  179 (179)
                      ......     +++++++.+|+||
T Consensus       166 ~~~~~~~~~~~~~~kk~~~~c~i~  189 (189)
T 4dsu_A          166 KHKEKMSKDGKKKKKKSKTKCVIM  189 (189)
T ss_dssp             HHHHHHHHCSSTTCCC--------
T ss_pred             HhhhhcccccccccccccceeeeC
Confidence            544332     2345555778886

>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=99.97  E-value=2.2e-29  Score=181.62  Aligned_cols=153  Identities=38%  Similarity=0.704  Sum_probs=139.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+.+++..+.++||||+|++++..++..++++++++|+|||++++.+|+.+...|
T Consensus        38 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  117 (194)
T 3reg_A           38 CLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKW  117 (194)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999999888889999999999999999999999999999999999999999999999976789


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      +..+....++.|+++||||+|+..+.        .+.+..+++..+++.+++..++++||++|.|++++|+++++.+...
T Consensus       118 ~~~~~~~~~~~p~ilv~nK~Dl~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          118 EPEIKHYIDTAKTVLVGLKVDLRKDG--------SDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHHHCTTSEEEEEEECGGGCCTT--------TTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             HHHHHHhCCCCCEEEEEEChhhccCC--------CCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            99998877889999999999997532        2357889999999999995599999999999999999999998865


Q ss_pred             c
Q 030337          163 P  163 (179)
Q Consensus       163 ~  163 (179)
                      .
T Consensus       190 ~  190 (194)
T 3reg_A          190 K  190 (194)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.97  E-value=4.3e-29  Score=179.95  Aligned_cols=159  Identities=47%  Similarity=0.862  Sum_probs=137.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+.+.+.+++..+.++||||+|++++..++..+++++|++++|||++++.+|+.+...|
T Consensus        33 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  112 (194)
T 2atx_A           33 CLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEW  112 (194)
T ss_dssp             HHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888888888888999999999999999999999999999999999999999999984489


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.......  ......+.++.+++.++++.++...++++||++|.|++++|+++++.++
T Consensus       113 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          113 VPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             HHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            99998877789999999999997642100  0001123577889999999999768999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       193 ~  193 (194)
T 2atx_A          193 T  193 (194)
T ss_dssp             C
T ss_pred             c
Confidence            5

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.97  E-value=1.2e-29  Score=184.03  Aligned_cols=161  Identities=24%  Similarity=0.406  Sum_probs=129.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||++..+...+.+++..+.+.||||+|++.+..++..++++++++++|||++++.+|+.+ ..|
T Consensus        39 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  117 (201)
T 3oes_A           39 SLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVI-ESL  117 (201)
T ss_dssp             HHHHHHHHSCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHH-HHH
Confidence            4788999999999999999988877777788889999999999999999999999999999999999999999999 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .++|+++|+||+|+.....          +..+++..+++..++ .++++||++|.|++++|++|++.+.
T Consensus       118 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~i~  186 (201)
T 3oes_A          118 YQKLHEGHGKTRVPVVLVGNKADLSPERE----------VQAVEGKKLAESWGA-TFMESSARENQLTQGIFTKVIQEIA  186 (201)
T ss_dssp             HHHHHC-----CCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECccCccccc----------cCHHHHHHHHHHhCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            88887664  4799999999999976553          788899999999998 9999999999999999999999887


Q ss_pred             CCchhhhhccCCCCCcccC
Q 030337          161 QPPKQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~~~~~~~~~~c~~~  179 (179)
                      +.....    .++.+|.||
T Consensus       187 ~~~~~~----~~~~~c~l~  201 (201)
T 3oes_A          187 RVENSY----GQERRCHLM  201 (201)
T ss_dssp             HC-----------------
T ss_pred             hhhhhh----ccccccccC
Confidence            554332    234458876

>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=99.97  E-value=1.5e-29  Score=180.52  Aligned_cols=151  Identities=25%  Similarity=0.494  Sum_probs=109.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. +.+.+++..+.++||||+|++++..++..+++++|++|+|||++++.+|+.+ ..
T Consensus        23 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  101 (183)
T 2fu5_C           23 CVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-RN  101 (183)
T ss_dssp             -------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHH-HH
Confidence            588999999999999999986664 7788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+.+..          .++.+++..+++.+++ +++++||++|.|++++|+++.+.+.
T Consensus       102 ~~~~i~~~~~~~~piilv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~i~  170 (183)
T 2fu5_C          102 WIRNIEEHASADVEKMILGNKCDVNDKR----------QVSKERGEKLALDYGI-KFMETSAKANINVENAFFTLARDIK  170 (183)
T ss_dssp             HHHHHHHHSCTTCEEEEEEEC--CCSCC----------CSCHHHHHHHHHHHTC-EEEECCC---CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECccCCccC----------cCCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            998888765 579999999999997644          3778889999999998 8999999999999999999999887


Q ss_pred             CCchh
Q 030337          161 QPPKQ  165 (179)
Q Consensus       161 ~~~~~  165 (179)
                      ....+
T Consensus       171 ~~~~~  175 (183)
T 2fu5_C          171 AKMDK  175 (183)
T ss_dssp             HHHHH
T ss_pred             HHhhc
Confidence            54433

>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=99.97  E-value=7.4e-29  Score=176.66  Aligned_cols=152  Identities=28%  Similarity=0.357  Sum_probs=134.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+.+++..+.+++|||+|++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   99 (181)
T 3t5g_A           21 SLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI-KVI   99 (181)
T ss_dssp             HHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999999 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+....          .++.+++..+++.+++ .++++||++|.|++++|+++++.+.
T Consensus       100 ~~~~~~~~~~~~~p~ilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~~~  168 (181)
T 3t5g_A          100 HGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAESWNA-AFLESSAKENQTAVDVFRRIILEAE  168 (181)
T ss_dssp             HHHHHHHC----CCEEEEEECTTCTTTC----------CSCHHHHHHHHHHTTC-EEEECCTTSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECccchhcc----------eecHHHHHHHHHHhCC-cEEEEecCCCCCHHHHHHHHHHHHH
Confidence            88886654  479999999999997654          3888999999999998 8999999999999999999999998


Q ss_pred             CCchhh
Q 030337          161 QPPKQK  166 (179)
Q Consensus       161 ~~~~~~  166 (179)
                      ......
T Consensus       169 ~~~~~~  174 (181)
T 3t5g_A          169 KMDGAC  174 (181)
T ss_dssp             TC----
T ss_pred             HhcCCc
Confidence            765443

>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=99.96  E-value=5.6e-29  Score=177.63  Aligned_cols=163  Identities=57%  Similarity=0.925  Sum_probs=138.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+++.||+++.+...+.+++..+.+++|||+|++++..++..+++++|++++|||++++.+++.+...|
T Consensus        20 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~   99 (186)
T 1mh1_A           20 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKW   99 (186)
T ss_dssp             HHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHcCCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHH
Confidence            47889999999999999999888888889999999999999999999999999999999999999999999999984479


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.+.....  ......+.++.+++..+++..+..+++++||++|.|++++|+++.+.+.
T Consensus       100 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  179 (186)
T 1mh1_A          100 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (186)
T ss_dssp             HHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHhCCCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHh
Confidence            99998877789999999999997532100  0000113467788899999998768999999999999999999999998


Q ss_pred             CCchh
Q 030337          161 QPPKQ  165 (179)
Q Consensus       161 ~~~~~  165 (179)
                      +++.+
T Consensus       180 ~~~~~  184 (186)
T 1mh1_A          180 CPPPV  184 (186)
T ss_dssp             CCCC-
T ss_pred             ccccc
Confidence            76543

>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=99.96  E-value=2.9e-29  Score=182.09  Aligned_cols=147  Identities=30%  Similarity=0.501  Sum_probs=133.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+...+.+++..+.+.||||+|++.+..++..++++++++++|||++++.+++.+ ..|
T Consensus        29 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~  107 (206)
T 2bov_A           29 ALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADF  107 (206)
T ss_dssp             HHHHHHHHSCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888899999999999999999999999999999999999999999999998 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+.....          ++.+++..+++.+++ +++++||++|.|++++|+++++.+.
T Consensus       108 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~~i~  176 (206)
T 2bov_A          108 REQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWNV-NYVETSAKTRANVDKVFFDLMREIR  176 (206)
T ss_dssp             HHHHHHHTTCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEeccCcccccc----------ccHHHHHHHHHHhCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            88888765  3899999999999976543          778889999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       177 ~  177 (206)
T 2bov_A          177 A  177 (206)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.96  E-value=4.3e-29  Score=180.93  Aligned_cols=159  Identities=45%  Similarity=0.776  Sum_probs=129.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||+++.+...+.+++..+.+++|||+|+++|..++..+++++|++|+|||++++.+|+.+...|
T Consensus        35 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~  114 (201)
T 2q3h_A           35 SLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKW  114 (201)
T ss_dssp             HHHHHHHC--------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888888889999999999999999999999999999999999999999999999984489


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.......  ......+.+..+++..+++.++...++++||++|.|++++|+++++.+.
T Consensus       115 ~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  194 (201)
T 2q3h_A          115 VPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGI  194 (201)
T ss_dssp             HHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHh
Confidence            99998877789999999999997532100  0000123477888999999998778999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       195 ~  195 (201)
T 2q3h_A          195 Q  195 (201)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=99.96  E-value=5.2e-29  Score=178.35  Aligned_cols=159  Identities=32%  Similarity=0.663  Sum_probs=136.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+.+++..+.+++|||+|+++|..++..++++++++|+|||++++.+|+.+...|
T Consensus        22 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~  101 (184)
T 1m7b_A           22 ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKW  101 (184)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888888888899999999999999999999999999999999999999999999986689


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccC-CCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSK-TQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~-~~~~i~~~f~~l~~~i  159 (179)
                      +..+....++.|+++||||+|+.++....  ......+.++.+++..+++.++...++++||+ ++.|++++|+.+++.+
T Consensus       102 ~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~  181 (184)
T 1m7b_A          102 KGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  181 (184)
T ss_dssp             HHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHH
Confidence            99888877789999999999997531000  00012245788899999999885589999999 6899999999999988


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      +.
T Consensus       182 l~  183 (184)
T 1m7b_A          182 VN  183 (184)
T ss_dssp             HT
T ss_pred             hc
Confidence            74

>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=99.96  E-value=8.4e-29  Score=177.92  Aligned_cols=146  Identities=25%  Similarity=0.367  Sum_probs=128.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+...+.+++..+.++||||+|++++..+ ..++++++++++|||++++.+|+.+ ..|
T Consensus        36 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~-~~~  113 (187)
T 3c5c_A           36 ALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSS-SSY  113 (187)
T ss_dssp             HHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCcccCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            57889999999999999999888888888999999999999999998875 6799999999999999999999999 789


Q ss_pred             HHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEecc-CCCCcHHHHHHHHHH
Q 030337           83 IPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSS-KTQQNVKAVFDAAIK  157 (179)
Q Consensus        83 ~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa-~~~~~i~~~f~~l~~  157 (179)
                      +..+....    .+.|++|||||+|+.....          ++.+++.++++.+++ .++++|| ++|.||+++|+++++
T Consensus       114 ~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sa~~~g~gv~~lf~~l~~  182 (187)
T 3c5c_A          114 LELLALHAKETQRSIPALLLGNKLDMAQYRQ----------VTKAEGVALAGRFGC-LFFEVSACLDFEHVQHVFHEAVR  182 (187)
T ss_dssp             HHHHHHHHHHHCCCCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEECCSSSCSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccCCCCCEEEEEECcchhhcCc----------cCHHHHHHHHHHcCC-cEEEEeecCccccHHHHHHHHHH
Confidence            88887653    5899999999999976543          788899999999998 8999999 899999999999999


Q ss_pred             HHhC
Q 030337          158 VVLQ  161 (179)
Q Consensus       158 ~i~~  161 (179)
                      .+.+
T Consensus       183 ~i~~  186 (187)
T 3c5c_A          183 EARR  186 (187)
T ss_dssp             HHHC
T ss_pred             HHhh
Confidence            8753

>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=99.96  E-value=2.5e-29  Score=178.98  Aligned_cols=160  Identities=85%  Similarity=1.320  Sum_probs=119.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+...+.+++..+.+++|||+|++++..++..+++++|++++|||++++.+++.+...|
T Consensus        23 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  102 (182)
T 3bwd_D           23 CLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKW  102 (182)
T ss_dssp             HHHHHHHHSCCC----------CBCCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888777777888899999999999999999999999999999999999999999984479


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      +..+....++.|+++|+||+|+.+.............++.+++.++++.++...++++||++|.|++++|+++++.++++
T Consensus       103 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  182 (182)
T 3bwd_D          103 IPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVLQP  182 (182)
T ss_dssp             HHHHHHHCTTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             HHHHHHhCCCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            99998877789999999999997643200000111235778889999999976899999999999999999999988753

>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=99.96  E-value=3.8e-29  Score=180.60  Aligned_cols=147  Identities=24%  Similarity=0.390  Sum_probs=129.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+..++..+.+.+|||+|++++..++..+++++|++++|||++++.+++.+ ..|
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  101 (199)
T 2gf0_A           23 SLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEEL-GPI  101 (199)
T ss_dssp             HHHHHHHHSCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT-HHH
T ss_pred             HHHHHHHcCCCCCcccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHH-HHH
Confidence            4788999999999999999988887788899999999999999999999999999999999999999999999988 667


Q ss_pred             HHHHhhcC---CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA---PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~---~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+....   ++.|+++|+||+|+....           +..+.+..+++.+++ .++++||++|.|++++|+++++.+
T Consensus       102 ~~~i~~~~~~~~~~piilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~  169 (199)
T 2gf0_A          102 YKLIVQIKGSVEDIPVMLVGNKCDETQRE-----------VDTREAQAVAQEWKC-AFMETSAKMNYNVKELFQELLTLE  169 (199)
T ss_dssp             HHHHHHHHSCGGGSCEEEEEECTTCSSCS-----------SCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHHHHHHhcCCCCCCEEEEEECccCCccc-----------cCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHHHHHHHH
Confidence            66665532   478999999999997532           677888889999998 899999999999999999999987


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      ...
T Consensus       170 ~~~  172 (199)
T 2gf0_A          170 TRR  172 (199)
T ss_dssp             SSS
T ss_pred             hhh
Confidence            654

>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=99.96  E-value=1.5e-28  Score=180.13  Aligned_cols=161  Identities=41%  Similarity=0.789  Sum_probs=116.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||+++.+...+.+++..+.++||||+|++.+..++..++++++++++|||++++.+|+.+...|
T Consensus        49 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  128 (214)
T 2j1l_A           49 SLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRW  128 (214)
T ss_dssp             HHHHHHHC-------CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHH
Confidence            47889999999999999999888888889999999999999999999999999999999999999999999999985589


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|++||+||+|+.......  ......+.++.+++..+++..+...++++||++|.|++++|+++++.+.
T Consensus       129 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~  208 (214)
T 2j1l_A          129 YPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVAL  208 (214)
T ss_dssp             HHHHHHHCSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            99998877789999999999997643100  0000112477788899999999778999999999999999999999887


Q ss_pred             CCc
Q 030337          161 QPP  163 (179)
Q Consensus       161 ~~~  163 (179)
                      +..
T Consensus       209 ~~~  211 (214)
T 2j1l_A          209 SSR  211 (214)
T ss_dssp             HC-
T ss_pred             Hhh
Confidence            543

>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=99.96  E-value=1.6e-28  Score=179.19  Aligned_cols=159  Identities=32%  Similarity=0.663  Sum_probs=135.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+.+.+.+++..+.++||||+|+++|..++..++++++++|+|||++++.+|+.+...|
T Consensus        43 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~  122 (205)
T 1gwn_A           43 ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKW  122 (205)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCCcCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHH
Confidence            57889999999999999999888777888888999999999999999999999999999999999999999999986689


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccC-CCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSK-TQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~-~~~~i~~~f~~l~~~i  159 (179)
                      +..+....++.|++|||||+|+..+....  ......+.++.+++..+++.++...++++||+ ++.||+++|+.+++.+
T Consensus       123 ~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~  202 (205)
T 1gwn_A          123 KGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  202 (205)
T ss_dssp             HHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHH
Confidence            99998877789999999999997531000  00012245788889999999885589999999 6899999999999987


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      +.
T Consensus       203 l~  204 (205)
T 1gwn_A          203 VN  204 (205)
T ss_dssp             HH
T ss_pred             hh
Confidence            63

>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=99.96  E-value=1.1e-28  Score=179.23  Aligned_cols=148  Identities=26%  Similarity=0.438  Sum_probs=124.3

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+ .+.+.+++..+.++||||+|++++..++..++++++++|+|||++++.+|+.+ ..
T Consensus        44 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~-~~  122 (201)
T 2hup_A           44 CVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSV-PH  122 (201)
T ss_dssp             HHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTH-HH
T ss_pred             HHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHH-HH
Confidence            47889999999999999998666 57788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|++||+||+|+.....          ++.+++.++++..++..++++||++|.||+++|++|++.+.
T Consensus       123 ~~~~i~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  192 (201)
T 2hup_A          123 WIEDVRKYAGSNIVQLLIGNKSDLSELRE----------VSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELI  192 (201)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECCccccccc----------cCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999888776 6899999999999976443          77888999999999768999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       193 ~  193 (201)
T 2hup_A          193 M  193 (201)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.96  E-value=1e-27  Score=174.03  Aligned_cols=159  Identities=45%  Similarity=0.818  Sum_probs=136.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+.+++..+.++||||+|++++..++..+++++|++++|||++++.+++.+...|
T Consensus        40 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  119 (201)
T 2gco_A           40 CLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKW  119 (201)
T ss_dssp             HHHHHHHHSSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCcCCcccCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888877888999999999999999999999999999999999999999999999986689


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.......  ......+.+..+++..+++..+...++++||++|.|++++|+++.+.++
T Consensus       120 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          120 TPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             HHHHHHHSTTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            98888877789999999999997642100  0001113477788899999998878999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       200 ~  200 (201)
T 2gco_A          200 Q  200 (201)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.96  E-value=2e-28  Score=178.19  Aligned_cols=147  Identities=27%  Similarity=0.488  Sum_probs=132.2

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+ .+.+.+++..+.++||||+|++++..++..++++++++|+|||++++.+|+.+ ..
T Consensus        41 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~-~~  119 (201)
T 2ew1_A           41 CLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCL-PE  119 (201)
T ss_dssp             HHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HH
Confidence            47889999999999999998555 47788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++..++ .++++||++|.|++++|+++++.+.
T Consensus       120 ~~~~i~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~~l~~~l~~~i~  188 (201)
T 2ew1_A          120 WLREIEQYASNKVITVLVGNKIDLAERRE----------VSQQRAEEFSEAQDM-YYLETSAKESDNVEKLFLDLACRLI  188 (201)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999888765 5799999999999976443          778888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       189 ~  189 (201)
T 2ew1_A          189 S  189 (201)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.96  E-value=4e-28  Score=174.07  Aligned_cols=145  Identities=22%  Similarity=0.296  Sum_probs=126.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+.+.||. ..+.+.+.+++..+.++||||+|++++.     ++++++++++|||++++.+|+.+ ..|
T Consensus        35 sL~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~-~~~  107 (184)
T 3ihw_A           35 ALVHRYLTGTYVQEESPEG-GRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTV-YNY  107 (184)
T ss_dssp             HHHHHHHHSSCCCCCCTTC-EEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHhcCCCCCCcCCCc-ceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHH-HHH
Confidence            4788999999999999994 4566888899999999999999999876     88899999999999999999998 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|++|||||+|+....        .+.++.+++.++++.++...++++||++|.||+++|+++++.+.
T Consensus       108 ~~~i~~~~~~~~~piilv~nK~Dl~~~~--------~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~  179 (184)
T 3ihw_A          108 FLRLCSFRNASEVPMVLVGTQDAISAAN--------PRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVV  179 (184)
T ss_dssp             HHHHHTTSCGGGSCEEEEEECTTCBTTB--------CCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECccccccc--------ccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            99988765  479999999999995322        23588899999999998449999999999999999999999887


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      +.
T Consensus       180 ~~  181 (184)
T 3ihw_A          180 AL  181 (184)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.96  E-value=6.8e-28  Score=171.15  Aligned_cols=150  Identities=29%  Similarity=0.490  Sum_probs=132.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||++..+. ..+.+++..+.+.+|||||++.+...+..+++++|++++|||++++.+++.+ ..
T Consensus        24 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  102 (181)
T 3tw8_B           24 SLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNV-KR  102 (181)
T ss_dssp             HHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986554 7788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+....++.|+++|+||+|+.....          +..+.+..++...++ +++++||++|.|++++|+++.+.+..
T Consensus       103 ~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (181)
T 3tw8_B          103 WLHEINQNCDDVCRILVGNKNDDPERKV----------VETEDAYKFAGQMGI-QLFETSAKENVNVEEMFNCITELVLR  171 (181)
T ss_dssp             HHHHHHHHCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-CEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCEEEEEECCCCchhcc----------cCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            9999988878899999999999976553          778889999999998 89999999999999999999998875


Q ss_pred             Cch
Q 030337          162 PPK  164 (179)
Q Consensus       162 ~~~  164 (179)
                      ...
T Consensus       172 ~~~  174 (181)
T 3tw8_B          172 AKK  174 (181)
T ss_dssp             HHH
T ss_pred             Hhh
Confidence            443

>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=99.96  E-value=8.1e-28  Score=169.27  Aligned_cols=147  Identities=25%  Similarity=0.501  Sum_probs=124.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. +.+.+++..+.+.+|||+|++++..++..++++++++++|||++++.+++.+ ..
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   99 (170)
T 1z08_A           21 SLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKV-KN   99 (170)
T ss_dssp             HHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999986665 6777888999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+..+..          ++.+++..+++..+. .++++||++|.|++++|+++.+.+.
T Consensus       100 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          100 WVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA-KHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             HHHHHHHHHGGGSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHHHHHHh
Confidence            988887655 5799999999999976543          778889999999997 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       169 ~  169 (170)
T 1z08_A          169 E  169 (170)
T ss_dssp             C
T ss_pred             h
Confidence            4

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.2e-27  Score=176.32  Aligned_cols=150  Identities=26%  Similarity=0.428  Sum_probs=124.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||++..+. ..+.+++..+.++||||+|+++|..++..++++++++|+|||++++.+|+.+ ..
T Consensus        28 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~-~~  106 (223)
T 3cpj_B           28 NLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENC-NH  106 (223)
T ss_dssp             HHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHH-HH
Confidence            478899999999999999996665 6788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|++||+||+|+.....          ++.+++..+++..++ .++++||++|.||+++|++|++.+.
T Consensus       107 ~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  175 (223)
T 3cpj_B          107 WLSELRENADDNVAVGLIGNKSDLAHLRA----------VPTEESKTFAQENQL-LFTETSALNSENVDKAFEELINTIY  175 (223)
T ss_dssp             HHHHHHHHCC--CEEEEEECCGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCCC-CCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCCCeEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            998888765 5799999999999976443          777888999999997 8999999999999999999999987


Q ss_pred             CCch
Q 030337          161 QPPK  164 (179)
Q Consensus       161 ~~~~  164 (179)
                      +...
T Consensus       176 ~~~~  179 (223)
T 3cpj_B          176 QKVS  179 (223)
T ss_dssp             TCC-
T ss_pred             HHhh
Confidence            6443

>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=99.96  E-value=1.7e-27  Score=173.53  Aligned_cols=161  Identities=45%  Similarity=0.797  Sum_probs=130.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+.+++..+.+.||||+|++++..++..++++++++++|||++++.+++.+...|
T Consensus        40 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  119 (207)
T 2fv8_A           40 CLLIVFSKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKW  119 (207)
T ss_dssp             HHHHHHHHSSCC-------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhcCCCCCcCCCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888777888999999999999999999999999999999999999999999999986689


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.......  ......+.+..+++..+++..+...++++||++|.|++++|++|.+.++
T Consensus       120 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~  199 (207)
T 2fv8_A          120 VPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAAL  199 (207)
T ss_dssp             HHHHHHHSTTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            98888877789999999999997642100  0000112467788889999998878999999999999999999999988


Q ss_pred             CCc
Q 030337          161 QPP  163 (179)
Q Consensus       161 ~~~  163 (179)
                      ++.
T Consensus       200 ~~~  202 (207)
T 2fv8_A          200 QKR  202 (207)
T ss_dssp             SCC
T ss_pred             HHh
Confidence            653

>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=99.96  E-value=6e-28  Score=173.74  Aligned_cols=147  Identities=25%  Similarity=0.467  Sum_probs=127.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. +.+.+++..+.++||||+|++++..++..++++++++|+|||++++.+++.+ ..
T Consensus        36 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  114 (191)
T 2a5j_A           36 CLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL-TS  114 (191)
T ss_dssp             HHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986665 7788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++..++ .++++||++|.|++++|++|++.+.
T Consensus       115 ~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  183 (191)
T 2a5j_A          115 WLEDARQHSSSNMVIMLIGNKSDLESRRD----------VKREEGEAFAREHGL-IFMETSAKTACNVEEAFINTAKEIY  183 (191)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECcccCCccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988888765 5899999999999976443          778889999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       184 ~  184 (191)
T 2a5j_A          184 R  184 (191)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.96  E-value=6.3e-28  Score=172.12  Aligned_cols=147  Identities=31%  Similarity=0.467  Sum_probs=133.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||++..+...+..++..+.+++|||+|++.+..++..+++++|++++|||++++.+|+.+ ..|
T Consensus        33 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  111 (183)
T 3kkq_A           33 ALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHV-DRF  111 (183)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCCCCCCCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccC-CCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSK-TQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~-~~~~i~~~f~~l~~~i  159 (179)
                      +..+....  .+.|+++|+||+|+.+..          .++.+++..+++.+++ +++++||+ +|.|++++|+++++.+
T Consensus       112 ~~~~~~~~~~~~~p~ilv~nK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~~~Sa~~~~~~v~~l~~~l~~~i  180 (183)
T 3kkq_A          112 HQLILRVKDRESFPMILVANKVDLMHLR----------KVTRDQGKEMATKYNI-PYIETSAKDPPLNVDKTFHDLVRVI  180 (183)
T ss_dssp             HHHHHHHHTSSCCCEEEEEECTTCSTTC----------CSCHHHHHHHHHHHTC-CEEEEBCSSSCBSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcEEEEEECCCchhcc----------CcCHHHHHHHHHHhCC-eEEEeccCCCCCCHHHHHHHHHHHH
Confidence            88776532  579999999999997654          3888999999999997 89999999 9999999999999987


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      .+
T Consensus       181 ~~  182 (183)
T 3kkq_A          181 RQ  182 (183)
T ss_dssp             HH
T ss_pred             hh
Confidence            53

>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=99.96  E-value=6.4e-28  Score=175.61  Aligned_cols=157  Identities=57%  Similarity=0.940  Sum_probs=133.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|...+.||+++.+...+.+++..+.++||||+|++++..++..+++++|++++|||++++.+|+.+...|
T Consensus        45 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  124 (204)
T 4gzl_A           45 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKW  124 (204)
T ss_dssp             HHHHHHHHSCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHH
Confidence            47889999999999999999888888888999999999999999999999999999999999999999999999985589


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+....++.|+++|+||+|+.......  ......+.++.+++..+++..+..+++++||++|.|++++|+++++.+
T Consensus       125 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          125 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HHHHHHHCSSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            99998887889999999999997543100  000111236778889999999987899999999999999999999865

>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=99.96  E-value=2.1e-27  Score=172.71  Aligned_cols=147  Identities=29%  Similarity=0.522  Sum_probs=132.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||++..+. +.+.+++..+.+.||||+|++++...+..+++++|++|+|||++++.+++.+ ..
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~-~~  101 (206)
T 2bcg_Y           23 CLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGV-KM  101 (206)
T ss_dssp             HHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999996665 7788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+.....          +..+.+..+++..++ +++++||++|.|++++|+++.+.+.
T Consensus       102 ~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~~i~  170 (206)
T 2bcg_Y          102 WLQEIDRYATSTVLKLLVGNKCDLKDKRV----------VEYDVAKEFADANKM-PFLETSALDSTNVEDAFLTMARQIK  170 (206)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            998888765 5799999999999976443          777888999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       171 ~  171 (206)
T 2bcg_Y          171 E  171 (206)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=5.8e-28  Score=171.58  Aligned_cols=145  Identities=21%  Similarity=0.233  Sum_probs=122.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+ +.||+++.+.+.+.+++..+.+++|||+|+++     ..+++++|++|+|||++++.+|+.+ ..|
T Consensus        22 sli~~l~~~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~-~~~   94 (178)
T 2iwr_A           22 SLIHRFLTGSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDENSFQAV-SRL   94 (178)
T ss_dssp             HHHHHHHHSCCCC-CSSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCC-cCCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCHHHHHHH-HHH
Confidence            5789999999987 89999988888888999999999999999987     3678999999999999999999998 676


Q ss_pred             HHHHhh---cC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRH---YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~---~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..+..   .. +++|+++||||+|+....        .+.++.+++..+++..+...++++||++|.|++++|+++++.
T Consensus        95 ~~~i~~~~~~~~~~~piilv~nK~Dl~~~~--------~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~  166 (178)
T 2iwr_A           95 HGQLSSLRGEGRGGLALALVGTQDRISASS--------PRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQK  166 (178)
T ss_dssp             HHHHHHHHCSSSCCCEEEEEEECTTCBTTB--------CCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCEEEEEECccccccc--------cCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHH
Confidence            554443   32 579999999999995311        134788889999988743389999999999999999999998


Q ss_pred             HhCC
Q 030337          159 VLQP  162 (179)
Q Consensus       159 i~~~  162 (179)
                      +...
T Consensus       167 ~~~~  170 (178)
T 2iwr_A          167 VVTL  170 (178)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8753

>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=99.95  E-value=1.2e-27  Score=167.80  Aligned_cols=147  Identities=26%  Similarity=0.462  Sum_probs=130.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+.+.+.+++..+.+++|||+|++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        18 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~   96 (167)
T 1c1y_A           18 ALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDL-QDL   96 (167)
T ss_dssp             HHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHcCCCCCCCCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888888899999999999999999999999999999999999999999998 678


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+.++..          ++.+++..+++.++..+++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A           97 REQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHhhCcCCCcEEEEEECcccccccc----------CCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            87776643  5899999999999976543          77888899999884348999999999999999999998764

>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=99.95  E-value=2e-27  Score=167.05  Aligned_cols=146  Identities=29%  Similarity=0.481  Sum_probs=130.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. +.+.+++..+.+.+|||+|++++...+..+++++|++++|||++++.+++.+ ..
T Consensus        21 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   99 (170)
T 1r2q_A           21 SLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARA-KN   99 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986664 7777888899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+..+..          ++.+++..+++..+. .++++||++|.|++++|++|.+.+.
T Consensus       100 ~~~~~~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~i~~~~~  168 (170)
T 1r2q_A          100 WVKELQRQASPNIVIALSGNKADLANKRA----------VDFQEAQSYADDNSL-LFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             HHHHHHHhcCCCCcEEEEEECccCccccc----------cCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            988887765 6899999999999976443          677888999999998 8999999999999999999998764

>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=99.95  E-value=5.5e-27  Score=168.34  Aligned_cols=147  Identities=30%  Similarity=0.549  Sum_probs=132.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+. +.+..++..+.+.||||+|++.+...+..+++++|++|+|||++++.+++.+ ..
T Consensus        37 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  115 (189)
T 2gf9_A           37 SFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAV-QD  115 (189)
T ss_dssp             HHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986664 6777888899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++.+++ .++++||++|.|++++|+++++.+.
T Consensus       116 ~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~~i~  184 (189)
T 2gf9_A          116 WATQIKTYSWDNAQVILVGNKCDLEDERV----------VPAEDGRRLADDLGF-EFFEASAKENINVKQVFERLVDVIC  184 (189)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECcccccccC----------CCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            998888765 5899999999999976543          677889999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       185 ~  185 (189)
T 2gf9_A          185 E  185 (189)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.95  E-value=1.6e-27  Score=171.60  Aligned_cols=150  Identities=29%  Similarity=0.530  Sum_probs=134.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. ..+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++.+++.+ ..
T Consensus        31 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  109 (196)
T 3tkl_A           31 CLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQ  109 (196)
T ss_dssp             HHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999986554 7788899999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+.+..+++.+++ +++++||++|.|++++|+++++.+.
T Consensus       110 ~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~~l~~~l~~~i~  178 (196)
T 3tkl_A          110 WLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSLGI-PFLETSAKNATNVEQSFMTMAAEIK  178 (196)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-cEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            998888776 5799999999999976553          788889999999998 8999999999999999999999887


Q ss_pred             CCch
Q 030337          161 QPPK  164 (179)
Q Consensus       161 ~~~~  164 (179)
                      ....
T Consensus       179 ~~~~  182 (196)
T 3tkl_A          179 KRMG  182 (196)
T ss_dssp             HHC-
T ss_pred             HHhc
Confidence            5433

>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=99.95  E-value=1.3e-27  Score=167.55  Aligned_cols=147  Identities=30%  Similarity=0.499  Sum_probs=129.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||.+..+...+.+++..+.+.+|||+|++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        19 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~   97 (168)
T 1u8z_A           19 ALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADF   97 (168)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999988888888899999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+.+...          +..+++..+++..++ +++++||++|.|++++|+++++.+.
T Consensus        98 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A           98 REQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRADQWNV-NYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             HHHHHHHHCCTTSCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcEEEEEECccccccCc----------cCHHHHHHHHHHcCC-eEEEeCCCCCCCHHHHHHHHHHHHH
Confidence            88887665  3799999999999976543          778889999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       167 ~  167 (168)
T 1u8z_A          167 A  167 (168)
T ss_dssp             T
T ss_pred             h
Confidence            4

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.95  E-value=5.4e-28  Score=171.50  Aligned_cols=149  Identities=21%  Similarity=0.304  Sum_probs=129.5

Q ss_pred             eeehhhhhCCCCCcccCceeec-eeeEEEECC-eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDN-FSANVVVDG-STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~-~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|.+.+.||+|.. +.+.+.+++ ..+.+++|||+|++.+..++..+++++|++++|||++++.+++.+ .
T Consensus        21 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~   99 (178)
T 2hxs_A           21 SLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENL-E   99 (178)
T ss_dssp             HHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHH-H
Confidence            4788999999999999999844 457777876 689999999999999999999999999999999999999999998 7


Q ss_pred             HHHHHHhhcC---CCCc-EEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           81 KWIPELRHYA---PGVP-IILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        81 ~~~~~i~~~~---~~~p-iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      .|+..+....   .+.| +++|+||+|+.+...          ++.+++..+++..++ +++++||++|.|++++|+++.
T Consensus       100 ~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~  168 (178)
T 2hxs_A          100 DWYTVVKKVSEESETQPLVALVGNKIDLEHMRT----------IKPEKHLRFCQENGF-SSHFVSAKTGDSVFLCFQKVA  168 (178)
T ss_dssp             HHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEEECTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCCCCeEEEEEEccccccccc----------cCHHHHHHHHHHcCC-cEEEEeCCCCCCHHHHHHHHH
Confidence            8988887643   2445 899999999976443          777889999999998 899999999999999999999


Q ss_pred             HHHhCCc
Q 030337          157 KVVLQPP  163 (179)
Q Consensus       157 ~~i~~~~  163 (179)
                      +.+....
T Consensus       169 ~~~~~~~  175 (178)
T 2hxs_A          169 AEILGIK  175 (178)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhhh
Confidence            9887643

>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=99.95  E-value=3.7e-27  Score=167.62  Aligned_cols=148  Identities=31%  Similarity=0.495  Sum_probs=131.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. ..+.+++..+.+.||||+|++++...+..+++++|++|+|||++++.+++.+ ..
T Consensus        27 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  105 (181)
T 2efe_B           27 SLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERA-KK  105 (181)
T ss_dssp             HHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986664 7777888899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+....          .+..+++..+++..++ .++++||++|.|++++|++|++.+.
T Consensus       106 ~~~~~~~~~~~~~p~i~v~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~~~~  174 (181)
T 2efe_B          106 WVQELQAQGNPNMVMALAGNKSDLLDAR----------KVTAEDAQTYAQENGL-FFMETSAKTATNVKEIFYEIARRLP  174 (181)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTTC----------CSCHHHHHHHHHHTTC-EEEECCSSSCTTHHHHHHHHHHTCC
T ss_pred             HHHHHHHhcCCCCcEEEEEECCcccccc----------cCCHHHHHHHHHHcCC-EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            988888765 589999999999997544          3778889999999998 8999999999999999999999776


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ..
T Consensus       175 ~~  176 (181)
T 2efe_B          175 RV  176 (181)
T ss_dssp             --
T ss_pred             hc
Confidence            43

>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=99.95  E-value=1.8e-27  Score=168.92  Aligned_cols=147  Identities=29%  Similarity=0.466  Sum_probs=131.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+++.||++..+.+.+.+++..+.+.+|||+|++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        24 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  102 (181)
T 2fn4_A           24 ALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEV-GKL  102 (181)
T ss_dssp             HHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCcCccccCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHH-HHH
Confidence            4788999999999999999988888888999999999999999999999999999999999999999999999998 678


Q ss_pred             HHHHhh-cC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRH-YA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~-~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.. .. .+.|+++|+||+|+.....          ++.+++..++...++ .++++||++|.|++++|++|.+.+.
T Consensus       103 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~~~  171 (181)
T 2fn4_A          103 FTQILRVKDRDDFPVVLVGNKADLESQRQ----------VPRSEASAFGASHHV-AYFEASAKLRLNVDEAFEQLVRAVR  171 (181)
T ss_dssp             HHHHHHHHTSSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHHHHHHH
Confidence            777743 33 5799999999999976543          778888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       172 ~  172 (181)
T 2fn4_A          172 K  172 (181)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.95  E-value=2.6e-27  Score=166.26  Aligned_cols=147  Identities=31%  Similarity=0.462  Sum_probs=131.5

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+ ...+.+++..+.+.+|||||++.+..++..+++++|++++|||++++.+++.+ ..
T Consensus        20 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   98 (168)
T 1z2a_A           20 SMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAI-SS   98 (168)
T ss_dssp             HHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999998555 47788889899999999999999999999999999999999999999999998 77


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+....++.|+++|+||+|+.....          +..+++..+++..++ +++++||++|.|++++|+++.+.+.+
T Consensus        99 ~~~~i~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A           99 WREKVVAEVGDIPTALVQNKIDLLDDSC----------IKNEEAEGLAKRLKL-RFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHHHCSCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHhCCCCCEEEEEECcccCcccc----------cCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            9888876657899999999999976443          677888999999998 99999999999999999999998864

>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=99.95  E-value=1.6e-27  Score=170.28  Aligned_cols=147  Identities=29%  Similarity=0.445  Sum_probs=131.7

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+ ...+.+++..+.+.+|||+|++++...+..+++++|++|+|||++++.+++.+ ..
T Consensus        25 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  103 (186)
T 2bme_A           25 CLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNAL-TN  103 (186)
T ss_dssp             HHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999998655 47778899899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          ++.+++..+++..++ .++++||++|.|++++|+++++.+.
T Consensus       104 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  172 (186)
T 2bme_A          104 WLTDARMLASQNIVIILCGNKKDLDADRE----------VTFLEASRFAQENEL-MFLETSALTGENVEEAFVQCARKIL  172 (186)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEecCCCCCCHHHHHHHHHHHHH
Confidence            988887765 5899999999999976443          777888999999998 8999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       173 ~  173 (186)
T 2bme_A          173 N  173 (186)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=5.6e-27  Score=164.82  Aligned_cols=146  Identities=23%  Similarity=0.448  Sum_probs=131.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||+|..+. ..+.+++..+.+.+|||+|++++...+..+++++|++++|||++++.+++.+ ..
T Consensus        21 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   99 (170)
T 1z0j_A           21 SIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KN   99 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999996664 7778889999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... +..|+++|+||+|+.....          +..+++..+++..+. .++++||++|.|++++|+++.+.+.
T Consensus       100 ~~~~l~~~~~~~~~iilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          100 WVRELRQHGPPSIVVAIAGNKCDLTDVRE----------VMERDAKDYADSIHA-IFVETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             HHHHHHHHSCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             HHHHHHHhCCCCCcEEEEEECCccccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            998888764 6899999999999976543          777888999999997 8999999999999999999998765

>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=99.95  E-value=2.8e-27  Score=167.66  Aligned_cols=147  Identities=27%  Similarity=0.489  Sum_probs=131.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. ..+.+++..+.+.+|||+|++++...+..+++++|++++|||++++.+++.+ ..
T Consensus        30 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  108 (179)
T 1z0f_A           30 CLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHL-SS  108 (179)
T ss_dssp             HHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHH-HH
Confidence            478899999999999999986654 6777889999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++.++++..++ .++++||++|.|++++|+++++.+.
T Consensus       109 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  177 (179)
T 1z0f_A          109 WLTDARNLTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENGL-LFLEASAKTGENVEDAFLEAAKKIY  177 (179)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            988888766 6899999999999976443          778889999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       178 ~  178 (179)
T 1z0f_A          178 Q  178 (179)
T ss_dssp             -
T ss_pred             h
Confidence            4

>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=99.95  E-value=2.6e-27  Score=166.41  Aligned_cols=149  Identities=29%  Similarity=0.465  Sum_probs=131.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||+|..+. ..+.+++..+.+.+|||||++.+...+..+++++|++++|||++++.+++.+ ..
T Consensus        18 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   96 (170)
T 1ek0_A           18 SIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKA-RH   96 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHH-HH
Confidence            478899999999999999986664 7778899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+....       ..+.+..+.+..+++..++ .++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~~~~~~~~~~~piilv~nK~Dl~~~~-------~~~~v~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  168 (170)
T 1ek0_A           97 WVKELHEQASKDIIIALVGNKIDXLQEG-------GERKVAREEGEKLAEEKGL-LFFETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGSS-------CCCCSCHHHHHHHHHHHTC-EEEECCTTTCTTHHHHHHHHHTTSC
T ss_pred             HHHHHHHhcCCCCcEEEEEECCCccccc-------cccCCCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            988887765 689999999999997642       1234777888999999998 8999999999999999999988664

>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=99.95  E-value=8.5e-27  Score=165.58  Aligned_cols=148  Identities=31%  Similarity=0.546  Sum_probs=122.9

Q ss_pred             eeehhhhhCCCC-CcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.|. ..+.||++..+. ..+.+++..+.+++|||+|++.+...+..++++++++++|||++++.+++.+ .
T Consensus        25 sli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~  103 (180)
T 2g6b_A           25 CLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNI-Q  103 (180)
T ss_dssp             HHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHH-H
Confidence            477889999995 578899986665 5567899999999999999999999999999999999999999999999998 7


Q ss_pred             HHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           81 KWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        81 ~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .|+..+.... .+.|+++|+||+|+.....          +..+++..+++..++ .++++||++|.|++++|+++.+.+
T Consensus       104 ~~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~  172 (180)
T 2g6b_A          104 AWLTEIHEYAQHDVALMLLGNKVDSAHERV----------VKREDGEKLAKEYGL-PFMETSAKTGLNVDLAFTAIAKEL  172 (180)
T ss_dssp             HHHHHHHHHSCTTCEEEEEEECCSTTSCCC----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCcEEEEEECcccCcccc----------cCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHH
Confidence            8988888766 5899999999999976443          778888999999998 899999999999999999999988


Q ss_pred             hCC
Q 030337          160 LQP  162 (179)
Q Consensus       160 ~~~  162 (179)
                      .+.
T Consensus       173 ~~~  175 (180)
T 2g6b_A          173 KRR  175 (180)
T ss_dssp             HC-
T ss_pred             HHH
Confidence            753

>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=99.95  E-value=2.9e-27  Score=173.32  Aligned_cols=145  Identities=24%  Similarity=0.380  Sum_probs=119.8

Q ss_pred             eeehhhhh--CCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCcc-ccccCcccccCccEEEEEEeCCChhhHHHH
Q 030337            3 FIYIICNY--SLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQED-YNRLRPLSYRGADVFILAFSLISKASYENV   78 (179)
Q Consensus         3 ~l~~~~~~--~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~   78 (179)
                      +|+.+|+.  ..|.+.+.| +| +.+.+.+.+++..+.+.+|||+|++. +..+...+++.++++|+|||++++.+|+.+
T Consensus        52 SLl~r~~~~~~~~~~~~~~-~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~  130 (211)
T 2g3y_A           52 TLANIFAGVHDSMDSDCEV-LGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKA  130 (211)
T ss_dssp             HHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCcCCc-cceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHH
Confidence            46788885  445666555 55 45568888999999999999999986 566777889999999999999999999998


Q ss_pred             HHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           79 AKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        79 ~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                       ..|...+....  .++|++|||||+|+....          .+..+++..++..+++ .++++||++|.||+++|++++
T Consensus       131 -~~~~~~l~~~~~~~~~piilVgNK~DL~~~r----------~v~~~e~~~~a~~~~~-~~~e~SAk~g~~v~elf~~l~  198 (211)
T 2g3y_A          131 -SELRIQLRRARQTEDIPIILVGNKSDLVRCR----------EVSVSEGRACAVVFDC-KFIETSAAVQHNVKELFEGIV  198 (211)
T ss_dssp             -HHHHHHHHTSGGGTTSCEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHH
T ss_pred             -HHHHHHHHHHhCCCCCcEEEEEEChHHhcCc----------eEeHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHH
Confidence             77887776542  479999999999997644          3777888889999998 899999999999999999999


Q ss_pred             HHHh
Q 030337          157 KVVL  160 (179)
Q Consensus       157 ~~i~  160 (179)
                      +.+.
T Consensus       199 ~~i~  202 (211)
T 2g3y_A          199 RQVR  202 (211)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9875

>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=99.95  E-value=6e-27  Score=169.81  Aligned_cols=147  Identities=27%  Similarity=0.546  Sum_probs=132.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+. +.+..++..+.++||||+|++++...+..++++++++|+|||++++.+++.+ ..
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  101 (203)
T 1zbd_A           23 SFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAV-QD  101 (203)
T ss_dssp             HHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999986654 7777888999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+....          .+..+.+..+++.+++ .++++||++|.|++++|++|++.+.
T Consensus       102 ~~~~i~~~~~~~~piilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  170 (203)
T 1zbd_A          102 WSTQIKTYSWDNAQVLLVGNKCDMEDER----------VVSSERGRQLADHLGF-EFFEASAKDNINVKQTFERLVDVIC  170 (203)
T ss_dssp             HHHHHHHHSCSSCEEEEEEECTTCTTSC----------CSCHHHHHHHHHHHTC-EEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECcccCccc----------ccCHHHHHHHHHHCCC-eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            998888766 589999999999997644          3778889999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       171 ~  171 (203)
T 1zbd_A          171 E  171 (203)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=3.6e-27  Score=169.85  Aligned_cols=147  Identities=24%  Similarity=0.457  Sum_probs=131.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+. ..+.+++..+.+.||||+|++++...+..++++++++|+|||++++.+++.+ ..
T Consensus        38 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~-~~  116 (192)
T 2fg5_A           38 SIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTL-KK  116 (192)
T ss_dssp             HHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHH-HH
Confidence            578899999999999999996664 6677788889999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++.++++..++ .++++||++|.|++++|++|.+.+.
T Consensus       117 ~~~~i~~~~~~~~piiiv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  185 (192)
T 2fg5_A          117 WVKELKEHGPENIVMAIAGNKCDLSDIRE----------VPLKDAKEYAESIGA-IVVETSAKNAINIEELFQGISRQIP  185 (192)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHTTTC-EEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHHhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            999888776 5799999999999975443          778889999999997 8999999999999999999999775


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       186 ~  186 (192)
T 2fg5_A          186 P  186 (192)
T ss_dssp             -
T ss_pred             h
Confidence            4

>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=99.95  E-value=4.2e-27  Score=165.46  Aligned_cols=146  Identities=29%  Similarity=0.539  Sum_probs=123.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. ..+.+++..+.+.+|||||++++...+..++++++++++|||++++.+++.+ ..
T Consensus        18 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~   96 (170)
T 1g16_A           18 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNI-KQ   96 (170)
T ss_dssp             HHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999996664 6777788889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ++.|+++|+||+|+...           .+..+++..+++.+++ +++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~~i~~~~~~~~piilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gv~~l~~~l~~~~~  164 (170)
T 1g16_A           97 WFKTVNEHANDEAQLLLVGNKSDMETR-----------VVTADQGEALAKELGI-PFIESSAKNDDNVNEIFFTLAKLIQ  164 (170)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTC-----------CSCHHHHHHHHHHHTC-CEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEECccCCcC-----------ccCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            988888766 58999999999999432           2677888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       165 ~  165 (170)
T 1g16_A          165 E  165 (170)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=1.9e-27  Score=172.57  Aligned_cols=147  Identities=30%  Similarity=0.475  Sum_probs=120.4

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+ ...+.+++..+.++||||+|++++..++..+++++|++|+|||++++.+++.+ ..
T Consensus        40 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  118 (200)
T 2o52_A           40 CLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSL-AA  118 (200)
T ss_dssp             HHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999998655 47777899899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          ++.+++..+++..++ .++++||++|.|++++|+++++.+.
T Consensus       119 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~SA~~g~gi~~l~~~l~~~i~  187 (200)
T 2o52_A          119 WLTDARTLASPNIVVILCGNKKDLDPERE----------VTFLEASRFAQENEL-MFLETSALTGENVEEAFLKCARTIL  187 (200)
T ss_dssp             HHHHHHHHTCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEECCCcccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988887765 5899999999999976443          777888999999998 8999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       188 ~  188 (200)
T 2o52_A          188 N  188 (200)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=2.1e-27  Score=169.48  Aligned_cols=147  Identities=30%  Similarity=0.501  Sum_probs=132.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||.+..+...+.+++..+.+.||||+|++.+..++..++++++++++|||++++.+++.+ ..|
T Consensus        33 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  111 (187)
T 2a9k_A           33 ALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADF  111 (187)
T ss_dssp             HHHHHHHHSCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHhhCCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHH-HHH
Confidence            4788999999999999999988888888899999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+.+...          +..+++..+++.+++ +++++||++|.|++++|++|++.+.
T Consensus       112 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (187)
T 2a9k_A          112 REQILRVKEDENVPFLLVGNKSDLEDKRQ----------VSVEEAKNRAEQWNV-NYVETSAKTRANVDKVFFDLMREIR  180 (187)
T ss_dssp             HHHHHHHHCCTTCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECccccccCc----------cCHHHHHHHHHHcCC-eEEEeCCCCCCCHHHHHHHHHHHHH
Confidence            88887665  3799999999999976543          778889999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       181 ~  181 (187)
T 2a9k_A          181 A  181 (187)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.95  E-value=3.8e-27  Score=164.98  Aligned_cols=146  Identities=27%  Similarity=0.486  Sum_probs=130.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+.+.+.+++..+.+++|||||++.+..++..++++++++++|||++++.+++.+ ..|
T Consensus        18 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   96 (167)
T 1kao_A           18 ALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDI-KPM   96 (167)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHcCCCcccCCCCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHH-HHH
Confidence            4778999999999999999988888888999999999999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....  .+.|+++|+||+|+.....          +..+++..+++.+++ +++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A           97 RDQIIRVKRYEKVPVILVGNKVDLESERE----------VSSSEGRALAEEWGC-PFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHTTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-CEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEECCccccccc----------CCHHHHHHHHHHhCC-CEEEecCCCCcCHHHHHHHHHHHHh
Confidence            77776654  4799999999999976443          777888999999998 8999999999999999999998764

>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=99.95  E-value=1.5e-26  Score=166.28  Aligned_cols=149  Identities=27%  Similarity=0.534  Sum_probs=132.7

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||++..+. +.+.+++..+.+.||||+|++++..++..+++++|++|+|||++++.+++.+ ..
T Consensus        30 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  108 (195)
T 1x3s_A           30 SLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKL-DN  108 (195)
T ss_dssp             HHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999986654 7778899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+....  .+.|+++|+||+|+...           .+..+++..+++..++ .++++||++|.|++++|++|.+.+
T Consensus       109 ~~~~i~~~~~~~~~p~ilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~  176 (195)
T 1x3s_A          109 WLNELETYCTRNDIVNMLVGNKIDKENR-----------EVDRNEGLKFARKHSM-LFIEASAKTCDGVQCAFEELVEKI  176 (195)
T ss_dssp             HHHHHTTCCSCSCCEEEEEEECTTSSSC-----------CSCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcCCCcEEEEEECCcCccc-----------ccCHHHHHHHHHHcCC-EEEEecCCCCCCHHHHHHHHHHHH
Confidence            998888765  47999999999999542           2677888999999998 899999999999999999999998


Q ss_pred             hCCch
Q 030337          160 LQPPK  164 (179)
Q Consensus       160 ~~~~~  164 (179)
                      .+...
T Consensus       177 ~~~~~  181 (195)
T 1x3s_A          177 IQTPG  181 (195)
T ss_dssp             HTSGG
T ss_pred             Hhhhh
Confidence            86543

>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=99.95  E-value=6.2e-27  Score=168.48  Aligned_cols=147  Identities=27%  Similarity=0.448  Sum_probs=131.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.||+|..+. ..+.+++..+.+.||||+|++++..++..++++++++|+|||++++.+++.+ ..
T Consensus        40 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~-~~  118 (193)
T 2oil_A           40 NLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVV-ER  118 (193)
T ss_dssp             HHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986664 6777888999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++..++ .++++||++|.|++++|++|++.+.
T Consensus       119 ~l~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  187 (193)
T 2oil_A          119 WLKELYDHAEATIVVMLVGNKSDLSQARE----------VPTEEARMFAENNGL-LFLETSALDSTNVELAFETVLKEIF  187 (193)
T ss_dssp             HHHHHHTTSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEEECCCcccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988887765 5899999999999976443          677888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       188 ~  188 (193)
T 2oil_A          188 A  188 (193)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=8.5e-27  Score=163.57  Aligned_cols=146  Identities=23%  Similarity=0.364  Sum_probs=105.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++....+ ....|+.|..+.+.+.+++..+.+.+|||+|++.+..++..++++++++++|||++++.+|+.+ ..|
T Consensus        17 sli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   94 (166)
T 3q72_A           17 ALARIFGGVED-GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKA-SEL   94 (166)
T ss_dssp             HHHHHHCCC-----------CEEEEEEEETTEEEEEEEEECC---------------CCEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHcCccc-cCCCCccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHH-HHH
Confidence            35667765554 3556788877778888999999999999999999999999999999999999999999999998 778


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  ++.|+++|+||+|+.+...          ++.+++..++...++ +++++||++|.|++++|+++++.+.
T Consensus        95 ~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  163 (166)
T 3q72_A           95 RVQLRRARQTDDVPIILVGNKSDLVRSRE----------VSVDEGRACAVVFDC-KFIETSAALHHNVQALFEGVVRQIR  163 (166)
T ss_dssp             HHHHHHCC---CCCEEEEEECTTCCSSCC----------SCHHHHHHHHHHTTC-EEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEEEEeccccccccc----------cCHHHHHHHHHHhCC-cEEEeccCCCCCHHHHHHHHHHHHH
Confidence            88777653  5899999999999976553          888899999999998 9999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       164 ~  164 (166)
T 3q72_A          164 L  164 (166)
T ss_dssp             H
T ss_pred             h
Confidence            3

>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=99.95  E-value=3.9e-28  Score=174.71  Aligned_cols=147  Identities=28%  Similarity=0.530  Sum_probs=133.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||+|..+. ..+..++..+.++||||+|++.+..++..++++++++|+|||++++.+|+.+ ..
T Consensus        38 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  116 (191)
T 3dz8_A           38 SFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAV-QD  116 (191)
T ss_dssp             HHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHH-HH
Confidence            478899999999999999986654 7777888889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+..+..          +..+++..+++..++ .++++||++|.|++++|+++++.+.
T Consensus       117 ~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  185 (191)
T 3dz8_A          117 WATQIKTYSWDNAQVILVGNKCDMEEERV----------VPTEKGQLLAEQLGF-DFFEASAKENISVRQAFERLVDAIC  185 (191)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            999998866 6899999999999976543          788889999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       186 ~  186 (191)
T 3dz8_A          186 D  186 (191)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.95  E-value=5.3e-27  Score=169.42  Aligned_cols=146  Identities=28%  Similarity=0.425  Sum_probs=131.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+.+.+.+++..+.+++|||+|++. ...+..++++++++++|||++++.+++.+ ..|
T Consensus        43 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~-~~~  120 (196)
T 2atv_A           43 ALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEV-LPL  120 (196)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHH-HHH
Confidence            5788999999999999999988888888899999999999999998 77788899999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCC-cHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ-NVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~-~i~~~f~~l~~~i  159 (179)
                      +..+....  .+.|+++|+||+|+.....          ++.+++..+++.+++ .++++||++|. |++++|+++++.+
T Consensus       121 ~~~i~~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~g~~gi~~l~~~l~~~i  189 (196)
T 2atv_A          121 KNILDEIKKPKNVTLILVGNKADLDHSRQ----------VSTEEGEKLATELAC-AFYECSACTGEGNITEIFYELCREV  189 (196)
T ss_dssp             HHHHHHHHTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-EEEECCTTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHhCC-eEEEECCCcCCcCHHHHHHHHHHHH
Confidence            88877643  5899999999999976543          778889999999998 89999999999 9999999999988


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      .+
T Consensus       190 ~~  191 (196)
T 2atv_A          190 RR  191 (196)
T ss_dssp             HH
T ss_pred             Hh
Confidence            63

>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=99.95  E-value=4.7e-27  Score=170.00  Aligned_cols=148  Identities=24%  Similarity=0.376  Sum_probs=124.5

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccc-cCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|....+...+.|+++ +.+.+.+.+++..+.+.+|||+|++.+.. ++..++++++++|+|||++++.+|+.+ .
T Consensus        38 sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~  116 (195)
T 3cbq_A           38 TLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKV-P  116 (195)
T ss_dssp             HHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHH-H
Confidence            46777765555444556665 44557788899999999999999998765 777889999999999999999999998 7


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .|+..+....  .++|+++||||+|+....          .++.+++..+++.+++ .++++||++|.|++++|+++++.
T Consensus       117 ~~~~~i~~~~~~~~~piilv~nK~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~e~Sa~~~~~v~~lf~~l~~~  185 (195)
T 3cbq_A          117 ETLLRLRAGRPHHDLPVILVGNKSDLARSR----------EVSLEEGRHLAGTLSC-KHIETSAALHHNTRELFEGAVRQ  185 (195)
T ss_dssp             HHHHHHHHHSTTSCCCEEEEEECTTCTTTC----------CSCHHHHHHHHHHTTC-EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCEEEEeechhccccC----------CcCHHHHHHHHHHhCC-EEEEEcCCCCCCHHHHHHHHHHH
Confidence            8988887655  479999999999997644          3788889999999997 89999999999999999999998


Q ss_pred             HhCC
Q 030337          159 VLQP  162 (179)
Q Consensus       159 i~~~  162 (179)
                      +...
T Consensus       186 i~~~  189 (195)
T 3cbq_A          186 IRLR  189 (195)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            8653

>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=99.95  E-value=3.9e-27  Score=170.58  Aligned_cols=153  Identities=27%  Similarity=0.439  Sum_probs=122.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+. +.+.+++..+.++||||+|++++...+..+++++|++|+|||++++.+++.+ ..
T Consensus        43 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~-~~  121 (199)
T 2p5s_A           43 SFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNI-RE  121 (199)
T ss_dssp             HHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHH-HH
Confidence            478899999999999999996554 7788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|++||+||+|+.....    ....+.+..+.+..+++..++ .++++||++|.|++++|++|++.+.
T Consensus       122 ~~~~i~~~~~~~~piilv~NK~Dl~~~~~----~~~~~~v~~~~~~~~~~~~~~-~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          122 WVDMIEDAAHETVPIMLVGNKADIRDTAA----TEGQKCVPGHFGEKLAMTYGA-LFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             HHHHHHHHC---CCEEEEEECGGGHHHHH----HTTCCCCCHHHHHHHHHHHTC-EEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCCCCEEEEEECcccccccc----cccccccCHHHHHHHHHHcCC-eEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            998888765 5799999999999963210    011234778888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       197 ~  197 (199)
T 2p5s_A          197 K  197 (199)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=99.95  E-value=1.9e-26  Score=163.38  Aligned_cols=148  Identities=30%  Similarity=0.533  Sum_probs=125.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+ ...+.+++..+.+.+|||+|++++...+..++++++++++|||++++.+++.+ ..
T Consensus        22 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~  100 (177)
T 1wms_A           22 SLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNL-SN  100 (177)
T ss_dssp             HHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999998665 47788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |+..+....     .+.|+++|+||+|+.. .          .+..+++..+++.....+++++||++|.|++++|++++
T Consensus       101 ~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~----------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  169 (177)
T 1wms_A          101 WKKEFIYYADVKEPESFPFVILGNKIDISE-R----------QVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV  169 (177)
T ss_dssp             HHHHHHHHHTCSCTTTSCEEEEEECTTCSS-C----------SSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHccccccCCCcEEEEEECCcccc-c----------ccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHH
Confidence            888876543     4789999999999973 2          26778888888844434899999999999999999999


Q ss_pred             HHHhCC
Q 030337          157 KVVLQP  162 (179)
Q Consensus       157 ~~i~~~  162 (179)
                      +.+.+.
T Consensus       170 ~~~~~~  175 (177)
T 1wms_A          170 RRVLAT  175 (177)
T ss_dssp             HHHHTC
T ss_pred             HHHHhh
Confidence            988753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.95  E-value=2.6e-27  Score=171.87  Aligned_cols=149  Identities=21%  Similarity=0.275  Sum_probs=103.1

Q ss_pred             eeehhhhhC--CCCCcccCcee-eceeeEEEECCe--EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHH
Q 030337            3 FIYIICNYS--LGKQDYVPTVF-DNFSANVVVDGS--TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYEN   77 (179)
Q Consensus         3 ~l~~~~~~~--~f~~~~~pt~~-~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   77 (179)
                      +|+.++..+  .|.+.+.||+| +.+.+.+.+++.  .+.++||||+|++.+...+..+++++|++|+|||++++.+|+.
T Consensus        35 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  114 (208)
T 2yc2_C           35 ALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFES  114 (208)
T ss_dssp             --------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHH
T ss_pred             HHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHH
Confidence            578889999  89999999998 455577888887  8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCC----CCcEEEEEeCCCccc-ccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCC-CCcHHHH
Q 030337           78 VAKKWIPELRHYAP----GVPIILVGTKLDLRD-DKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKT-QQNVKAV  151 (179)
Q Consensus        78 ~~~~~~~~i~~~~~----~~piilv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~~i~~~  151 (179)
                      + ..|+..+....+    +.|+++|+||+|+.. ..          .++.+++..+++.+++ .++++||++ |.|++++
T Consensus       115 ~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~----------~v~~~~~~~~~~~~~~-~~~~~Sa~~~~~gi~~l  182 (208)
T 2yc2_C          115 C-KAWFELLKSARPDRERPLRAVLVANKTDLPPQRH----------QVRLDMAQDWATTNTL-DFFDVSANPPGKDADAP  182 (208)
T ss_dssp             H-HHHHHHHHHHCSCTTSCCEEEEEEECC-----------------CCCHHHHHHHHHHTTC-EEEECCC-------CHH
T ss_pred             H-HHHHHHHHHhhcccccCCcEEEEEECcccchhhc----------cCCHHHHHHHHHHcCC-EEEEeccCCCCcCHHHH
Confidence            9 789998887653    799999999999976 44          3778899999999997 999999999 9999999


Q ss_pred             HHHHHHHHhCCc
Q 030337          152 FDAAIKVVLQPP  163 (179)
Q Consensus       152 f~~l~~~i~~~~  163 (179)
                      |+++++.+.+..
T Consensus       183 ~~~i~~~~~~~~  194 (208)
T 2yc2_C          183 FLSIATTFYRNY  194 (208)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999887543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.95  E-value=2.4e-27  Score=170.89  Aligned_cols=148  Identities=30%  Similarity=0.503  Sum_probs=122.5

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.||+|..+ .+.+.+++..+.+.+|||+|++++..++..+++++|++|+|||++++.+++.+ ..
T Consensus        41 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~-~~  119 (192)
T 2il1_A           41 SLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDL-PK  119 (192)
T ss_dssp             HHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HH
Confidence            47889999999999999998555 47788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++..+...++++||++|.|++++|++|++.+.
T Consensus       120 ~~~~i~~~~~~~~piilV~NK~Dl~~~~~----------v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  189 (192)
T 2il1_A          120 WMKMIDKYASEDAELLLVGNKLDCETDRE----------ITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDIL  189 (192)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988888766 4799999999999976543          77788889988853348999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       190 ~  190 (192)
T 2il1_A          190 K  190 (192)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.95  E-value=9.2e-27  Score=169.12  Aligned_cols=147  Identities=27%  Similarity=0.461  Sum_probs=126.7

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||+|..+ ...+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++.+++.+ ..
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  101 (207)
T 1vg8_A           23 SLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DS  101 (207)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHH-HH
Confidence            47889999999999999998554 46777788889999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      |+..+....     .+.|+++|+||+|+...           .+..+.+..+++ ..+. .++++||++|.|++++|++|
T Consensus       102 ~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l  169 (207)
T 1vg8_A          102 WRDEFLIQASPRDPENFPFVVLGNKIDLENR-----------QVATKRAQAWCYSKNNI-PYFETSAKEAINVEQAFQTI  169 (207)
T ss_dssp             HHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-----------CSCHHHHHHHHHHTTSC-CEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHHHHhcccccCCCCcEEEEEECCCCccc-----------ccCHHHHHHHHHhcCCc-eEEEEeCCCCCCHHHHHHHH
Confidence            888776543     37899999999999732           266778888888 4555 89999999999999999999


Q ss_pred             HHHHhCC
Q 030337          156 IKVVLQP  162 (179)
Q Consensus       156 ~~~i~~~  162 (179)
                      ++.+...
T Consensus       170 ~~~~~~~  176 (207)
T 1vg8_A          170 ARNALKQ  176 (207)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9988653

>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=99.95  E-value=9.7e-27  Score=163.71  Aligned_cols=147  Identities=24%  Similarity=0.378  Sum_probs=114.0

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccc-cCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.++..+.+...+.++.+ +.+.+.+.+++..+.+.+|||+|++.+.. ++..+++++|++++|||++++.+|+.+ .
T Consensus        17 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~   95 (169)
T 3q85_A           17 TLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKV-P   95 (169)
T ss_dssp             HHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHH-H
Confidence            46788888888766666665 44557788899999999999999999876 777789999999999999999999999 7


Q ss_pred             HHHHHHhhcCC--CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           81 KWIPELRHYAP--GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        81 ~~~~~i~~~~~--~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .|+..+....+  +.|+++|+||+|+.+...          ++.+++..+++..++ +++++||++|.|++++|+++++.
T Consensus        96 ~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~~l~~~  164 (169)
T 3q85_A           96 ETLLRLRAGRPHHDLPVILVGNKSDLARSRE----------VSLEEGRHLAGTLSC-KHIETSAALHHNTRELFEGAVRQ  164 (169)
T ss_dssp             HHHHHHHHHSTTSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCCCEEEEeeCcchhhccc----------CCHHHHHHHHHHcCC-cEEEecCccCCCHHHHHHHHHHH
Confidence            88888877653  899999999999976543          888999999999998 99999999999999999999998


Q ss_pred             HhC
Q 030337          159 VLQ  161 (179)
Q Consensus       159 i~~  161 (179)
                      +..
T Consensus       165 i~~  167 (169)
T 3q85_A          165 IRL  167 (169)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>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=99.95  E-value=8.1e-27  Score=167.30  Aligned_cols=147  Identities=27%  Similarity=0.469  Sum_probs=129.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee--eEEEECCe---------EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS--ANVVVDGS---------TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~--~~~~~~~~---------~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.++..+.|.+.+.||++..+.  +.+..++.         .+.+.+|||+|++.+...+..+++++|++|+|||+++
T Consensus        26 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  105 (195)
T 3bc1_A           26 SVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTN  105 (195)
T ss_dssp             HHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTC
T ss_pred             HHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCC
Confidence            478899999999999999986664  45556665         7899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      +.+++.+ ..|+..+....  .+.|+++|+||+|+.....          +..+++.++++..++ +++++||++|.|++
T Consensus       106 ~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~  173 (195)
T 3bc1_A          106 EQSFLNV-RNWISQLQMHAYSENPDIVLCGNKSDLEDQRA----------VKEEEARELAEKYGI-PYFETSAANGTNIS  173 (195)
T ss_dssp             HHHHHTH-HHHHHHHHHHSSSSSCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHH
T ss_pred             HHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECcccccccc----------cCHHHHHHHHHHcCC-CEEEEECCCCCCHH
Confidence            9999998 78988887765  5899999999999976443          777889999999998 89999999999999


Q ss_pred             HHHHHHHHHHhC
Q 030337          150 AVFDAAIKVVLQ  161 (179)
Q Consensus       150 ~~f~~l~~~i~~  161 (179)
                      ++|++|.+.+.+
T Consensus       174 ~l~~~l~~~~~~  185 (195)
T 3bc1_A          174 HAIEMLLDLIMK  185 (195)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998864

>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=99.94  E-value=1.3e-26  Score=164.21  Aligned_cols=146  Identities=32%  Similarity=0.514  Sum_probs=129.8

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+ ...+.+++..+.+.+|||+|++++...+..++++++++++|||++++.+++.+ ..
T Consensus        29 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  107 (179)
T 2y8e_A           29 SLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQT-SK  107 (179)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHH-HH
Confidence            47889999999999999998544 57788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.....          +..+++..+++..+. .++++||++|.|++++|+++.+.+.
T Consensus       108 ~~~~i~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          108 WIDDVRTERGSDVIIMLVGNKTDLSDKRQ----------VSTEEGERKAKELNV-MFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             HHHHHHHHHTTSSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHHhcCCCCcEEEEEECCcccccCc----------CCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            888877654 5799999999999976543          777888999999998 8999999999999999999998664

>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=99.94  E-value=1.1e-26  Score=166.87  Aligned_cols=146  Identities=25%  Similarity=0.411  Sum_probs=127.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCcccc-ccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYN-RLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+++.+.|.+.+.||++..+. ..+.+++..+.+.||||+|++++. .++..++++++++|+|||++++.+++.+ .
T Consensus        35 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~-~  113 (189)
T 1z06_A           35 CLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSL-P  113 (189)
T ss_dssp             HHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHH-H
Confidence            578899999999999999986654 778889989999999999999998 7888999999999999999999999998 7


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCC---CcHHHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQ---QNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~---~~i~~~f~~l  155 (179)
                      .|+..+....  .+.|+++|+||+|+.....          ++.+++..+++..++ .++++||++|   .|++++|++|
T Consensus       114 ~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~~~~~i~~l~~~l  182 (189)
T 1z06_A          114 AWIEECKQHLLANDIPRILVGNKCDLRSAIQ----------VPTDLAQKFADTHSM-PLFETSAKNPNDNDHVEAIFMTL  182 (189)
T ss_dssp             HHHHHHHHHCCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-CEEECCSSSGGGGSCHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCEEEEEECccccccce----------eCHHHHHHHHHHcCC-EEEEEeCCcCCcccCHHHHHHHH
Confidence            8988887764  5799999999999976543          778889999999998 8999999999   9999999999


Q ss_pred             HHHHh
Q 030337          156 IKVVL  160 (179)
Q Consensus       156 ~~~i~  160 (179)
                      ++.+.
T Consensus       183 ~~~i~  187 (189)
T 1z06_A          183 AHKLK  187 (189)
T ss_dssp             C----
T ss_pred             HHHHh
Confidence            88764

>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=99.94  E-value=1.4e-26  Score=163.67  Aligned_cols=145  Identities=22%  Similarity=0.355  Sum_probs=114.4

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCcc--ccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQED--YNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|+.++..+.|.+.+. +.| +.+.+.+.+++..+.+.+|||+|++.  +..+...++++++++++|||++++.+|+.+ 
T Consensus        19 sl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-   96 (175)
T 2nzj_A           19 SLASLFAGKQERDLHE-QLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESA-   96 (175)
T ss_dssp             HHHHHHHCC-----CC-CSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHH-
T ss_pred             HHHHHHhcCCCccccC-ccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHH-
Confidence            4778899888876544 456 44457788899999999999999988  566777889999999999999999999998 


Q ss_pred             HHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           80 KKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        80 ~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ..|+..+....  .+.|+++|+||+|+.+...          ++.+++..++..+++ +++++||++|.|++++|++|++
T Consensus        97 ~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l~~  165 (175)
T 2nzj_A           97 SELRIQLRRTHQADHVPIILVGNKADLARCRE----------VSVEEGRACAVVFDC-KFIETSATLQHNVAELFEGVVR  165 (175)
T ss_dssp             HHHHHHHHHCC----CCEEEEEECTTCTTTCC----------SCHHHHHHHHHHHTS-EEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccCCCCEEEEEEChhhccccc----------cCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Confidence            78888887653  4799999999999976443          777888899999997 8999999999999999999999


Q ss_pred             HHh
Q 030337          158 VVL  160 (179)
Q Consensus       158 ~i~  160 (179)
                      .+.
T Consensus       166 ~~~  168 (175)
T 2nzj_A          166 QLR  168 (175)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            875

>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=99.94  E-value=2.7e-26  Score=177.83  Aligned_cols=160  Identities=56%  Similarity=0.930  Sum_probs=137.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|...+.||+++.+...+.+++..+.+++|||+|++.+...+..+++++|++++|||++++.+|+.+...|
T Consensus       170 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~  249 (332)
T 2wkq_A          170 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKW  249 (332)
T ss_dssp             HHHHHHHHSCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHH
Confidence            47889999999999999999988888889999999999999999999999999999999999999999999999985589


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+.+.....  ......+.++.+++..+++..+...++++||++|.|++++|+++++.++
T Consensus       250 ~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  329 (332)
T 2wkq_A          250 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  329 (332)
T ss_dssp             HHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            99888877789999999999996531100  0001113477888999999999778999999999999999999999887


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      .+
T Consensus       330 ~~  331 (332)
T 2wkq_A          330 CP  331 (332)
T ss_dssp             C-
T ss_pred             cC
Confidence            64

>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=99.94  E-value=2.7e-27  Score=173.42  Aligned_cols=148  Identities=32%  Similarity=0.524  Sum_probs=130.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCe----------EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGS----------TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~----------~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.|.+.+.||++..+. +.+.+++.          .+.++||||+|++++...+..+++++|++|+|||+++
T Consensus        40 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~  119 (217)
T 2f7s_A           40 TFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTS  119 (217)
T ss_dssp             HHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTC
T ss_pred             HHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcC
Confidence            478899999999999999986664 67777766          7899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      +.+++.+ ..|+..+....  .+.|++||+||+|+.....          +..+++..+++.+++ .++++||++|.|++
T Consensus       120 ~~s~~~~-~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~  187 (217)
T 2f7s_A          120 QQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQRE----------VNERQARELADKYGI-PYFETSAATGQNVE  187 (217)
T ss_dssp             HHHHHHH-HHHHHTCCCCCTTTCCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-CEEEEBTTTTBTHH
T ss_pred             HHHHHHH-HHHHHHHHHhcCcCCCCEEEEEECCccccccc----------cCHHHHHHHHHHCCC-cEEEEECCCCCCHH
Confidence            9999998 78988887655  5799999999999976543          778889999999998 89999999999999


Q ss_pred             HHHHHHHHHHhCC
Q 030337          150 AVFDAAIKVVLQP  162 (179)
Q Consensus       150 ~~f~~l~~~i~~~  162 (179)
                      ++|++|++.+.+.
T Consensus       188 ~l~~~l~~~i~~~  200 (217)
T 2f7s_A          188 KAVETLLDLIMKR  200 (217)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988754

>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=99.94  E-value=4.2e-26  Score=163.64  Aligned_cols=146  Identities=32%  Similarity=0.505  Sum_probs=121.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||.++.+...+.+++..+.+.||||+|++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        36 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  114 (190)
T 3con_A           36 ALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADI-NLY  114 (190)
T ss_dssp             HHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHcCCCccccCCccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHH-HHH
Confidence            4778899999999999999988888888999999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+...           .+..+++.++++.+++ +++++||++|.|++++|++|++.+.
T Consensus       115 ~~~i~~~~~~~~~p~ilv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  182 (190)
T 3con_A          115 REQIKRVKDSDDVPMVLVGNKCDLPTR-----------TVDTKQAHELAKSYGI-PFIETSAKTRQGVEDAFYTLVREIR  182 (190)
T ss_dssp             HHHHHHHHTCSCCCEEEEEECTTCSCC-----------CSCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCeEEEEEECCcCCcc-----------cCCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            88887654  37999999999999652           2677888999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       183 ~  183 (190)
T 3con_A          183 Q  183 (190)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=8.7e-27  Score=164.00  Aligned_cols=147  Identities=26%  Similarity=0.439  Sum_probs=129.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+...+..++..+.+.+|||||++++..++..++++++++++|||++++.+++.+ ..|
T Consensus        18 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~   96 (172)
T 2erx_A           18 SLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEEL-KPI   96 (172)
T ss_dssp             HHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT-HHH
T ss_pred             HHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHH-HHH
Confidence            4788999999999999999988887788889899999999999999999999999999999999999999999988 677


Q ss_pred             HHHHhhcC---CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA---PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~---~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+.+..   ++.|+++|+||+|+.....          +...++..+++..++ +++++||++|.|++++|+++.+.+
T Consensus        97 ~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A           97 YEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALARTWKC-AFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             HHHHHHHHC---CCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCCCCCCEEEEEEccccccccc----------cCHHHHHHHHHHhCC-eEEEecCCCCcCHHHHHHHHHHHH
Confidence            77766543   4799999999999976543          677788889999998 899999999999999999999866


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      ..
T Consensus       166 ~~  167 (172)
T 2erx_A          166 KR  167 (172)
T ss_dssp             CS
T ss_pred             hh
Confidence            43

>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=99.94  E-value=1.3e-26  Score=164.62  Aligned_cols=149  Identities=30%  Similarity=0.501  Sum_probs=113.9

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEEC-CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+++.+.|.+.+.||+|..+ ...+.++ +..+.+.+|||+|++.+...+..+++++|++|+|||++++.+++.+ .
T Consensus        23 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~  101 (182)
T 1ky3_A           23 SLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI-K  101 (182)
T ss_dssp             HHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHH-H
Confidence            47889999999999999998554 4666666 5678999999999999999999999999999999999999999998 7


Q ss_pred             HHHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           81 KWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .|+..+....     .+.|+++|+||+|+.....         .+..+++..+++..+...++++||++|.|++++|+++
T Consensus       102 ~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~---------~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  172 (182)
T 1ky3_A          102 SWRDEFLVHANVNSPETFPFVILGNKIDAEESKK---------IVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI  172 (182)
T ss_dssp             HHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGC---------CSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHH
T ss_pred             HHHHHHHHHhcccCcCCCcEEEEEECCccccccc---------cCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHH
Confidence            8888776543     4789999999999964331         3677888888885444489999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      .+.+.+
T Consensus       173 ~~~~~~  178 (182)
T 1ky3_A          173 ARSALQ  178 (182)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998864

>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=99.94  E-value=2.2e-27  Score=170.81  Aligned_cols=145  Identities=22%  Similarity=0.260  Sum_probs=122.7

Q ss_pred             eehhhhhCCCCCcc-----------cCceeecee-eEE-EECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCC
Q 030337            4 IYIICNYSLGKQDY-----------VPTVFDNFS-ANV-VVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI   70 (179)
Q Consensus         4 l~~~~~~~~f~~~~-----------~pt~~~~~~-~~~-~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~   70 (179)
                      |+ +++.+.|.+.+           .||+|..+. +.+ .+++..+.++||||+|++++..++..+++++|++|+|||++
T Consensus        30 L~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~  108 (198)
T 3t1o_A           30 NL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSA  108 (198)
T ss_dssp             HH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECC
T ss_pred             HH-HHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECC
Confidence            45 78888888775           457775554 444 56788999999999999999999999999999999999999


Q ss_pred             ------ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCC
Q 030337           71 ------SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKT  144 (179)
Q Consensus        71 ------~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~  144 (179)
                            +..+|+.+ ..|+..++....+.|++||+||+|+...            ++.+++.++++..++..++++||++
T Consensus       109 ~~~~~~~~~s~~~l-~~~l~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~Sa~~  175 (198)
T 3t1o_A          109 PNRLRANAESMRNM-RENLAEYGLTLDDVPIVIQVNKRDLPDA------------LPVEMVRAVVDPEGKFPVLEAVATE  175 (198)
T ss_dssp             GGGHHHHHHHHHHH-HHHHHHTTCCTTSSCEEEEEECTTSTTC------------CCHHHHHHHHCTTCCSCEEECBGGG
T ss_pred             cchhhHhHHHHHHH-HHHHHhhccccCCCCEEEEEEchhcccc------------cCHHHHHHHHHhcCCceEEEEecCC
Confidence                  56778887 6888888655578999999999999652            6778889999998876899999999


Q ss_pred             CCcHHHHHHHHHHHHhCC
Q 030337          145 QQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       145 ~~~i~~~f~~l~~~i~~~  162 (179)
                      |.|++++|++|++.+.+.
T Consensus       176 ~~gv~~l~~~l~~~i~~~  193 (198)
T 3t1o_A          176 GKGVFETLKEVSRLVLAR  193 (198)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHH
Confidence            999999999999988753

>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=99.94  E-value=6.4e-26  Score=158.41  Aligned_cols=146  Identities=30%  Similarity=0.503  Sum_probs=130.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+...+..++..+.+.+|||+|++++...+..++++++++++|||++++.+++.+ ..|
T Consensus        18 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~   96 (166)
T 2ce2_X           18 ALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI-HQY   96 (166)
T ss_dssp             HHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCcCccccCCccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            4678899999999999999988888888899999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+...           .+..+.+.++++.+++ +++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~i~~~~~~~~~p~iiv~nK~Dl~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X           97 REQIKRVKDSDDVPMVLVGNKSDLAAR-----------TVESRQAQDLARSYGI-PYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHTCSCCCEEEEEECTTCSCC-----------CSCHHHHHHHHHHHTC-CEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcEEEEEEchhhhhc-----------ccCHHHHHHHHHHcCC-eEEEecCCCCCCHHHHHHHHHHHHH
Confidence            88887664  37999999999999752           2667888999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       165 ~  165 (166)
T 2ce2_X          165 Q  165 (166)
T ss_dssp             T
T ss_pred             h
Confidence            4

>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=99.94  E-value=4.6e-26  Score=166.08  Aligned_cols=146  Identities=30%  Similarity=0.546  Sum_probs=129.7

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.+.+.||++..+. ..+.+++..+.+.||||+|++.+...+..+++++|++|+|||++++.+++.+ ..
T Consensus        35 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  113 (213)
T 3cph_A           35 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNI-KQ  113 (213)
T ss_dssp             HHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HH
Confidence            478899999999999999986664 7778899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.. .          .+..+++..+++.+++ +++++||++|.|++++|++|.+.+.
T Consensus       114 ~~~~i~~~~~~~~piilv~nK~Dl~~-~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~~~  181 (213)
T 3cph_A          114 WFKTVNEHANDEAQLLLVGNKSDMET-R----------VVTADQGEALAKELGI-PFIESSAKNDDNVNEIFFTLAKLIQ  181 (213)
T ss_dssp             HHHHHHHHTTTCSEEEEEEECTTCSS-C----------CSCHHHHHHHHHHHTC-CEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEEECCCCcc-c----------ccCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            988888766 4799999999999943 2          2677888899999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       182 ~  182 (213)
T 3cph_A          182 E  182 (213)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.94  E-value=2.8e-26  Score=165.52  Aligned_cols=147  Identities=24%  Similarity=0.373  Sum_probs=116.9

Q ss_pred             eeehhhhh--CCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCcc-ccccCcccccCccEEEEEEeCCChhhHHHHH
Q 030337            3 FIYIICNY--SLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQED-YNRLRPLSYRGADVFILAFSLISKASYENVA   79 (179)
Q Consensus         3 ~l~~~~~~--~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~   79 (179)
                      +|+.+|+.  ..|.+.+.++..+.+.+.+.+++..+.+.+|||+|++. +..++..+++.++++++|||++++.||+.+ 
T Consensus        21 sL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~-   99 (192)
T 2cjw_A           21 TLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKA-   99 (192)
T ss_dssp             HHHHHHHHHSCCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHH-
T ss_pred             HHHHHHhcCcCCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHH-
Confidence            46788885  45666665543355568888999999999999999876 566778889999999999999999999998 


Q ss_pred             HHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           80 KKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        80 ~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ..|...+....  .+.|+++||||+|+..+.          .+..+++..++...++ .++++||++|.||+++|+++++
T Consensus       100 ~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r----------~v~~~~~~~~a~~~~~-~~~e~SA~~g~~v~~lf~~l~~  168 (192)
T 2cjw_A          100 SELRIQLRRARQTEDIPIILVGNKSDLVRXR----------EVSVSEGRAXAVVFDX-KFIETSAAVQHNVKELFEGIVR  168 (192)
T ss_dssp             HHHHHHHHHHTTTSCCCEEEEEECTTCGGGC----------CSCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCCCeEEEEEechhhhccc----------cccHHHHHHHHHHhCC-ceEEeccccCCCHHHHHHHHHH
Confidence            78887776543  479999999999997544          3777788888888887 8999999999999999999999


Q ss_pred             HHhC
Q 030337          158 VVLQ  161 (179)
Q Consensus       158 ~i~~  161 (179)
                      .+..
T Consensus       169 ~~~~  172 (192)
T 2cjw_A          169 QVRL  172 (192)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.94  E-value=2.1e-27  Score=172.06  Aligned_cols=147  Identities=29%  Similarity=0.550  Sum_probs=121.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|...+.||++..+. ..+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++.+|+.+ ..
T Consensus        48 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~  126 (199)
T 3l0i_B           48 CLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNV-KQ  126 (199)
T ss_dssp             TTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHH-HH
Confidence            478889999999999999986654 7788899999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|++||+||+|+.....          +..+++..+++.+++ +++++||++|.|++++|++|++.+.
T Consensus       127 ~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~vSA~~g~gv~~l~~~l~~~l~  195 (199)
T 3l0i_B          127 WLQEIDRYASENVNKLLVGNKCDLTTKKV----------VDYTTAKEFADSLGI-PFLETSAKNATNVEQSFMTMAAEIK  195 (199)
T ss_dssp             HHHHHHSCC-CCSEEEEC-CCSSCC--CC----------CCSCC-CHHHHTTTC-CBCCCCC---HHHHHHHHHHTTTTT
T ss_pred             HHHHHHHhccCCCCEEEEEECccCCcccc----------CCHHHHHHHHHHcCC-eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            999988776 4799999999999976443          555667888999998 8999999999999999999988775


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       196 ~  196 (199)
T 3l0i_B          196 K  196 (199)
T ss_dssp             T
T ss_pred             H
Confidence            4

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.94  E-value=1.7e-25  Score=161.49  Aligned_cols=145  Identities=25%  Similarity=0.418  Sum_probs=125.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeE-------------------------------------EEEEEEeCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGST-------------------------------------VNLGLWDTA   44 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~-------------------------------------~~~~i~D~~   44 (179)
                      +|+.+++.+.|.+.+.||+|..+. ..+.+++..                                     +.+.|||||
T Consensus        22 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~  101 (208)
T 3clv_A           22 SIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTA  101 (208)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CCCTTTCEEEEEEEECT
T ss_pred             HHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccccccCccceeEEEEEECC
Confidence            478899999999999999986554 556666655                                     899999999


Q ss_pred             CCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHH
Q 030337           45 GQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ  124 (179)
Q Consensus        45 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~  124 (179)
                      |++.+...+..+++++|++++|||++++.+++.+ ..|+..+....+ .|+++|+||+| ....          .+..++
T Consensus       102 G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~-~~~~~~i~~~~~-~piilv~NK~D-~~~~----------~~~~~~  168 (208)
T 3clv_A          102 GQERYASIVPLYYRGATCAIVVFDISNSNTLDRA-KTWVNQLKISSN-YIIILVANKID-KNKF----------QVDILE  168 (208)
T ss_dssp             TGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHH-HHHHHHHHHHSC-CEEEEEEECTT-CC-C----------CSCHHH
T ss_pred             CcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHH-HHHHHHHHhhCC-CcEEEEEECCC-cccc----------cCCHHH
Confidence            9999999999999999999999999999999998 789888877654 99999999999 3322          377888


Q ss_pred             HHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          125 GEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       125 ~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +..+++..++ .++++||++|.|++++|++|.+.+.+
T Consensus       169 ~~~~~~~~~~-~~~~~Sa~~~~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          169 VQKYAQDNNL-LFIQTSAKTGTNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             HHHHHHHTTC-EEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCC-cEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            9999999998 99999999999999999999988763

>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=99.93  E-value=1.5e-26  Score=170.06  Aligned_cols=147  Identities=25%  Similarity=0.409  Sum_probs=128.9

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+|+.+.|...+.||+|..+ .....+++..+.++||||+|++.+..++..++++++++++|||++++.+|+.+ ..
T Consensus        30 sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~  108 (221)
T 3gj0_A           30 TFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PN  108 (221)
T ss_dssp             HHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHH-HH
Confidence            47788899999999999998554 46777889999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+....++.|+++|+||+|+.+..           +. .++..+++..++ .++++||++|.|++++|+++.+.+..
T Consensus       109 ~~~~~~~~~~~~p~ilv~nK~Dl~~~~-----------~~-~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~l~~  175 (221)
T 3gj0_A          109 WHRDLVRVCENIPIVLCGNKVDIKDRK-----------VK-AKSIVFHRKKNL-QYYDISAKSNYNFEKPFLWLARKLIG  175 (221)
T ss_dssp             HHHHHHHHSTTCCEEEEEECTTSSSCS-----------SC-GGGCCHHHHHTC-EEEECBGGGTBTTTHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCCCCEEEEEECCcccccc-----------cc-HHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999998887789999999999997533           22 245667788887 89999999999999999999999876


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      ..
T Consensus       176 ~~  177 (221)
T 3gj0_A          176 DP  177 (221)
T ss_dssp             CT
T ss_pred             Cc
Confidence            54

>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=99.89  E-value=4.8e-28  Score=175.94  Aligned_cols=158  Identities=58%  Similarity=0.940  Sum_probs=132.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||+++.+...+.+++..+.+++|||+|++++...+..+++++|++++|||++++.+++.+...|
T Consensus        45 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~  124 (204)
T 3th5_A           45 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKW  124 (204)
Confidence            57889999999999999999888888888888899999999999999999999999999999999999999999984488


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCccccccccc--CCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFFI--DHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....++.|+++|+||+|+........  .....+.+..+++..+++..+..+++++||++|.|++++|+++++.++
T Consensus       125 ~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~il  204 (204)
T 3th5_A          125 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  204 (204)
Confidence            888887666899999999999975431000  000112356677888888888767999999999999999999988653

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.93  E-value=1e-25  Score=162.48  Aligned_cols=149  Identities=15%  Similarity=0.130  Sum_probs=111.9

Q ss_pred             eeehhhhhCCCCC-cccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQ-DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++.+.|.. ++.||+|..+ ..+  ++..+.++||||+|++++..++..+++++|++|+|||++++.+|+.+ ..
T Consensus        32 sl~~~l~~~~~~~~~~~~t~~~~~-~~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~  107 (199)
T 4bas_A           32 TIINQVKPAQSSSKHITATVGYNV-ETF--EKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVV-KS  107 (199)
T ss_dssp             HHHHHHSCCC----CCCCCSSEEE-EEE--EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHH-HH
T ss_pred             HHHHHHhcCCCcccccccccceeE-EEE--EeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHH-HH
Confidence            5788999999998 8999998333 333  34448999999999999999999999999999999999999999998 66


Q ss_pred             HHHHHhhcC---------CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-HHHHhCCCeEEEeccCCCCcHHHH
Q 030337           82 WIPELRHYA---------PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-LRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        82 ~~~~i~~~~---------~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      |+..+....         .+.|++||+||+|+.....       ...+....... +++..++ .++++||++|.||+++
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~~l  179 (199)
T 4bas_A          108 EIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT-------AAELVEILDLTTLMGDHPF-VIFASNGLKGTGVHEG  179 (199)
T ss_dssp             HHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC-------HHHHHHHHTHHHHHTTSCE-EEEECBTTTTBTHHHH
T ss_pred             HHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC-------HHHHHHHhcchhhccCCee-EEEEeeCCCccCHHHH
Confidence            766664431         2799999999999976421       00011111111 1234565 8999999999999999


Q ss_pred             HHHHHHHHhCCc
Q 030337          152 FDAAIKVVLQPP  163 (179)
Q Consensus       152 f~~l~~~i~~~~  163 (179)
                      |++|++.+.+..
T Consensus       180 ~~~l~~~~~~~~  191 (199)
T 4bas_A          180 FSWLQETASRQS  191 (199)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh
Confidence            999999887543

>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=99.93  E-value=2.5e-25  Score=163.05  Aligned_cols=150  Identities=25%  Similarity=0.363  Sum_probs=126.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeE-EEE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSAN-VVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~-~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+++.+.|...+.||++..+... ... ++..+.+.+|||+|++.+..++..+++++|++|+|||++++.+++.+ .
T Consensus        26 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~  104 (218)
T 4djt_A           26 TYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNL-A  104 (218)
T ss_dssp             HHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHH-H
Confidence            47788899999999999998655533 333 34558999999999999999999999999999999999999999999 7


Q ss_pred             HHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           81 KWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        81 ~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .|+..+.... .+.|+++|+||+|+.....          +..+.+..+++..++ .++++||++|.|++++|+++.+.+
T Consensus       105 ~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~~l~~~l~~~~  173 (218)
T 4djt_A          105 RWVKEFQAVVGNEAPIVVCANKIDIKNRQK----------ISKKLVMEVLKGKNY-EYFEISAKTAHNFGLPFLHLARIF  173 (218)
T ss_dssp             HHHHHHHHHHCSSSCEEEEEECTTCC--------------CCHHHHHHHTTTCCC-EEEEEBTTTTBTTTHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCEEEEEECCCCccccc----------cCHHHHHHHHHHcCC-cEEEEecCCCCCHHHHHHHHHHHH
Confidence            8988888766 4699999999999976543          777888888888888 899999999999999999999998


Q ss_pred             hCCch
Q 030337          160 LQPPK  164 (179)
Q Consensus       160 ~~~~~  164 (179)
                      .+...
T Consensus       174 ~~~~~  178 (218)
T 4djt_A          174 TGRPD  178 (218)
T ss_dssp             HCCTT
T ss_pred             hcccc
Confidence            76543

>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=99.92  E-value=6.3e-25  Score=159.07  Aligned_cols=140  Identities=16%  Similarity=0.217  Sum_probs=106.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||++.. ...+.+++  +.+++|||||+++++.++..++++++++++|||++++.+|+.+ ..|
T Consensus        40 sLi~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~-~~~  114 (198)
T 1f6b_A           40 TLLHMLKDDRLG-QHVPTLHPT-SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLES-KEE  114 (198)
T ss_dssp             HHHHHHSCC-------CCCCCS-CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHhcCCCC-ccCCCCCce-eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HHH
Confidence            467888888884 578998864 45677777  8899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh----------------CCCeEEEeccCC
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI----------------GSPAYIECSSKT  144 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~e~Sa~~  144 (179)
                      +..+.+..  .+.|+++|+||+|+..            .++.+++.+++...                ....+++|||++
T Consensus       115 ~~~~~~~~~~~~~piilv~NK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  182 (198)
T 1f6b_A          115 LDSLMTDETIANVPILILGNKIDRPE------------AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLK  182 (198)
T ss_dssp             HHHHHTCGGGTTSCEEEEEECTTSTT------------CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTT
T ss_pred             HHHHHhCcccCCCcEEEEEECCCccc------------cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCC
Confidence            77765542  5799999999999965            15666666665532                123799999999


Q ss_pred             CCcHHHHHHHHHHHH
Q 030337          145 QQNVKAVFDAAIKVV  159 (179)
Q Consensus       145 ~~~i~~~f~~l~~~i  159 (179)
                      |.|++++|+++.+.+
T Consensus       183 g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          183 RQGYGEGFRWMAQYI  197 (198)
T ss_dssp             TBSHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhc
Confidence            999999999998643

>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=99.92  E-value=2.9e-24  Score=154.55  Aligned_cols=138  Identities=14%  Similarity=0.207  Sum_probs=113.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||++.. ...+.+++  +.+++|||+|+++++.++..++++++++++|||++++.+|+.+ ..|
T Consensus        38 sli~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~  112 (190)
T 1m2o_B           38 TLLHMLKNDRLA-TLQPTWHPT-SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEA-RVE  112 (190)
T ss_dssp             HHHHHHHHSCCC-CCCCCCSCE-EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHhcCCCC-ccccCCCCC-eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHH-HHH
Confidence            477889999885 578998863 46677777  8899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH------------hCCCeEEEeccCCCCcH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL------------IGSPAYIECSSKTQQNV  148 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~e~Sa~~~~~i  148 (179)
                      +..+....  .+.|+++|+||+|+...            ++.+++.+.+..            .++ .++++||++|.|+
T Consensus       113 ~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi  179 (190)
T 1m2o_B          113 LDALFNIAELKDVPFVILGNKIDAPNA------------VSEAELRSALGLLNTTGSQRIEGQRPV-EVFMCSVVMRNGY  179 (190)
T ss_dssp             HHHHHTCGGGTTCCEEEEEECTTSTTC------------CCHHHHHHHTTCSSCCC---CCSSCCE-EEEECBTTTTBSH
T ss_pred             HHHHHcchhhcCCCEEEEEECCCCcCC------------CCHHHHHHHhCCccccccccccccceE-EEEEeECCcCCCH
Confidence            77665432  57999999999999651            455555555432            233 7999999999999


Q ss_pred             HHHHHHHHHH
Q 030337          149 KAVFDAAIKV  158 (179)
Q Consensus       149 ~~~f~~l~~~  158 (179)
                      +++|+++.+.
T Consensus       180 ~~l~~~l~~~  189 (190)
T 1m2o_B          180 LEAFQWLSQY  189 (190)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHhh
Confidence            9999999764

>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=99.92  E-value=2.9e-25  Score=155.37  Aligned_cols=141  Identities=12%  Similarity=0.131  Sum_probs=107.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+ +.||++.. ...+..+  .+.+++|||+|++++..++..+++++|++++|||++++.+|+.+ ..|
T Consensus        15 sl~~~l~~~~~~~-~~~t~~~~-~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~   89 (164)
T 1r8s_A           15 TILYKLKLGEIVT-TIPTIGFN-VETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEA-REE   89 (164)
T ss_dssp             HHHHHHHHHCSSC-CCCCSSCC-EEEEECS--SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHHcCCcCc-ccCcCcee-EEEEEEC--CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            4778899999874 68998832 3334333  48899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-H----HHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-L----RKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  ++.|+++|+||+|+.+..            ..++... +    ++..++ +++++||++|.|++++|+++
T Consensus        90 ~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l  156 (164)
T 1r8s_A           90 LMRMLAEDELRDAVLLVFANKQDLPNAM------------NAAEITDKLGLHSLRHRNW-YIQATCATSGDGLYEGLDWL  156 (164)
T ss_dssp             HHHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCSSCCE-EEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHHhchhhcCCeEEEEEECcCCcCCC------------CHHHHHHHhCcccccCccE-EEEEcccCCCcCHHHHHHHH
Confidence            77665432  579999999999996532            1111111 1    112233 68999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      .+.+.+
T Consensus       157 ~~~i~~  162 (164)
T 1r8s_A          157 SNQLRN  162 (164)
T ss_dssp             HHHC--
T ss_pred             HHHHhh
Confidence            987753

>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=99.92  E-value=3.3e-24  Score=153.54  Aligned_cols=144  Identities=13%  Similarity=0.151  Sum_probs=111.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||+|. ....+.+++  +.+++|||+|++++...+..+++++|++++|||++++.+|+.+ ..|
T Consensus        31 sl~~~l~~~~~~-~~~~t~~~-~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~~  105 (187)
T 1zj6_A           31 TILYQFSMNEVV-HTSPTIGS-NVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVT-REE  105 (187)
T ss_dssp             HHHHHHHTTSCE-EEECCSCS-SCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHH-HHH
T ss_pred             HHHHHHhcCCCC-cCcCCCcc-ceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHH-HHH
Confidence            478899999998 78999883 335566666  8899999999999999999999999999999999999999998 678


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|+++|+||+|+...            ...++..+...     ..++ .++++||++|.|++++|+++
T Consensus       106 ~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l  172 (187)
T 1zj6_A          106 LYKMLAHEDLRKAGLLIFANKQDVKEC------------MTVAEISQFLKLTSIKDHQW-HIQACCALTGEGLCQGLEWM  172 (187)
T ss_dssp             HHHHHTSGGGTTCEEEEEEECTTSTTC------------CCHHHHHHHHTGGGCCSSCE-EEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHHhchhhCCCeEEEEEECCCCcCC------------CCHHHHHHHhChhhhcCCCc-EEEEccCCCCcCHHHHHHHH
Confidence            77776542  57999999999999652            23333333332     2344 79999999999999999999


Q ss_pred             HHHHhCCch
Q 030337          156 IKVVLQPPK  164 (179)
Q Consensus       156 ~~~i~~~~~  164 (179)
                      ++.+.....
T Consensus       173 ~~~~~~~~~  181 (187)
T 1zj6_A          173 MSRLKIRLE  181 (187)
T ss_dssp             HHHHCC---
T ss_pred             HHHHHHHhh
Confidence            998865543

>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=99.91  E-value=5.4e-24  Score=149.76  Aligned_cols=147  Identities=12%  Similarity=0.115  Sum_probs=111.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. .+.||+|.. ...+.+++  +.+++|||||++.+...+..+++++|++++|||++++.+|+.+ ..|
T Consensus        22 sl~~~l~~~~~~-~~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~~   96 (171)
T 1upt_A           22 TILYRLQVGEVV-TTIPTIGFN-VETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGIS-KSE   96 (171)
T ss_dssp             HHHHHHHHSSCC-CCCCCSSEE-EEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHH-HHH
T ss_pred             HHHHHHhcCCCC-CcCCcCccc-eEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            477889999985 478888733 35566665  7899999999999999999999999999999999999999988 566


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .+.|+++|+||+|+.....       ...+........++..++ .++++||++|.|++++|+++.+.+.
T Consensus        97 ~~~~~~~~~~~~~piilv~nK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l~~~i~  168 (171)
T 1upt_A           97 LVAMLEEEELRKAILVVFANKQDMEQAMT-------SSEMANSLGLPALKDRKW-QIFKTSATKGTGLDEAMEWLVETLK  168 (171)
T ss_dssp             HHHHHTCGGGTTCEEEEEEECTTSTTCCC-------HHHHHHHHTGGGCTTSCE-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhchhhCCCEEEEEEECCCCcCCCC-------HHHHHHHhCchhccCCce-EEEECcCCCCcCHHHHHHHHHHHHh
Confidence            65554432  5899999999999975321       000111111112233455 7999999999999999999999886


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ++
T Consensus       169 ~~  170 (171)
T 1upt_A          169 SR  170 (171)
T ss_dssp             TC
T ss_pred             hc
Confidence            53

>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=99.91  E-value=9.4e-24  Score=151.53  Aligned_cols=141  Identities=17%  Similarity=0.185  Sum_probs=113.5

Q ss_pred             eeehhhhhCC-CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSL-GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~-f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+. |...+.||++ .....+.+++  +.+.||||+|++++...+..+++++|++++|||++++.+++.+ ..
T Consensus        36 sli~~l~~~~~~~~~~~~t~~-~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~  111 (190)
T 2h57_A           36 TIINKLKPSNAQSQNILPTIG-FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVA-KE  111 (190)
T ss_dssp             HHHHHTSCGGGCCSSCCCCSS-EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhcCCCCCCCcCCccc-eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHH-HH
Confidence            4678888887 7888999998 3345566665  7899999999999999999999999999999999999999998 66


Q ss_pred             HHHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH--H---hCCCeEEEeccCCCCcHHHHH
Q 030337           82 WIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK--L---IGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        82 ~~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--~---~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      |+..+....    .+.|+++|+||+|+...            ...++..+.+.  .   .++ .++++||++|.|++++|
T Consensus       112 ~~~~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~  178 (190)
T 2h57_A          112 ELDTLLNHPDIKHRRIPILFFANKMDLRDA------------VTSVKVSQLLCLENIKDKPW-HICASDAIKGEGLQEGV  178 (190)
T ss_dssp             HHHHHHHSTTTTTSCCCEEEEEECTTSTTC------------CCHHHHHHHHTGGGCCSSCE-EEEECBTTTTBTHHHHH
T ss_pred             HHHHHHhChhhccCCCeEEEEEeCcCcccC------------CCHHHHHHHhChhhccCCce-EEEEccCCCCcCHHHHH
Confidence            766665443    47999999999999652            34445555543  1   244 79999999999999999


Q ss_pred             HHHHHHHh
Q 030337          153 DAAIKVVL  160 (179)
Q Consensus       153 ~~l~~~i~  160 (179)
                      ++|.+.+.
T Consensus       179 ~~l~~~i~  186 (190)
T 2h57_A          179 DWLQDQIQ  186 (190)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHHH
Confidence            99998764

>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=99.91  E-value=1.5e-24  Score=155.60  Aligned_cols=142  Identities=19%  Similarity=0.249  Sum_probs=111.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+.||++..+.. +..+  .+.++||||+|++++..++..+++++|++|+|||++++.+++.+ ..|
T Consensus        37 sli~~l~~~~~~~~~~~t~~~~~~~-~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~~  112 (188)
T 1zd9_A           37 TFVNVIASGQFNEDMIPTVGFNMRK-ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEAS-KNE  112 (188)
T ss_dssp             HHHHHHHHSCCCCSCCCCCSEEEEE-EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHHcCCCCCccCCCCceeEEE-EEeC--CEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHH-HHH
Confidence            4788999999999999999876542 3334  48899999999999999999999999999999999999999998 567


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+... . .+.|+++|+||+|+....            ..++.....     ...+. .++++||++|.|++++|++|
T Consensus       113 ~~~~~~~~~~~~~piilv~NK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~SA~~g~gv~~l~~~l  179 (188)
T 1zd9_A          113 LHNLLDKPQLQGIPVLVLGNKRDLPGAL------------DEKELIEKMNLSAIQDREI-CCYSISCKEKDNIDITLQWL  179 (188)
T ss_dssp             HHHHHTCGGGTTCCEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHhCcccCCCCEEEEEECCCCccCC------------CHHHHHHHhChhhhccCCe-eEEEEECCCCCCHHHHHHHH
Confidence            6665443 2 589999999999996532            212211111     11233 68999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      ++.+..
T Consensus       180 ~~~~~~  185 (188)
T 1zd9_A          180 IQHSKS  185 (188)
T ss_dssp             HHTCC-
T ss_pred             HHHHHh
Confidence            987654

>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=99.91  E-value=2.1e-23  Score=149.05  Aligned_cols=142  Identities=16%  Similarity=0.173  Sum_probs=112.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+. ...+.||+|.. .+.+.+++  +.+++|||||++++...+..+++++|++++|||++++.+++.+ ..|
T Consensus        33 sl~~~l~~~~-~~~~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~~  107 (186)
T 1ksh_A           33 TILKKFNGED-VDTISPTLGFN-IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDC-QRE  107 (186)
T ss_dssp             HHHHHHTTCC-CSSCCCCSSEE-EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHhcCC-CCcccccCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHH-HHH
Confidence            4678888888 78889998833 34555665  7899999999999999999999999999999999999999998 667


Q ss_pred             HHHHhhc--CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~--~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+...  ..+.|+++|+||+|+....            ..++..+...     ..++ +++++||++|.|++++|+++
T Consensus       108 ~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l  174 (186)
T 1ksh_A          108 LQSLLVEERLAGATLLIFANKQDLPGAL------------SCNAIQEALELDSIRSHHW-RIQGCSAVTGEDLLPGIDWL  174 (186)
T ss_dssp             HHHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHhChhcCCCcEEEEEeCccCCCCC------------CHHHHHHHhChhhccCCce-EEEEeeCCCCCCHHHHHHHH
Confidence            6666543  2579999999999996532            2222222221     2344 79999999999999999999


Q ss_pred             HHHHhCC
Q 030337          156 IKVVLQP  162 (179)
Q Consensus       156 ~~~i~~~  162 (179)
                      .+.+.+.
T Consensus       175 ~~~i~~~  181 (186)
T 1ksh_A          175 LDDISSR  181 (186)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHhc
Confidence            9988653

>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=99.91  E-value=2e-24  Score=166.09  Aligned_cols=134  Identities=16%  Similarity=0.089  Sum_probs=113.2

Q ss_pred             eeehhhhhCCCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-hHHHHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-SYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~   80 (179)
                      +|+.+|+.+.|. ++|.||+|+.+...+..++   .++||||  +++|+.+++.+++++|++|+|||++++. +++.+ .
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l-~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVEYTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYII-D  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEEEECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHH-H
T ss_pred             cEEEEEEcccccccCCCCCCccEEEEEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHH-H
Confidence            689999999999 9999999988775433333   6899999  9999999999999999999999999998 78877 8


Q ss_pred             HHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC--CCeEEEeccCCCCcHHHHHHHHHH
Q 030337           81 KWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG--SPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        81 ~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .|+..++.  .++|++||+||+|+.++..          +  +++.++++.++  . .++++||++|.|++++|..+..
T Consensus       106 ~~l~~~~~--~~~piilv~NK~DL~~~~~----------v--~~~~~~~~~~~~~~-~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK--NELETVMVINKMDLYDEDD----------L--RKVRELEEIYSGLY-PIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH--TTCEEEEEECCGGGCCHHH----------H--HHHHHHHHHHTTTS-CEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH--CCCCEEEEEeHHHcCCchh----------H--HHHHHHHHHHhhhC-cEEEEECCCCcCHHHHHHHhcC
Confidence            89887765  3799999999999965321          2  45677777776  5 8999999999999999988764

>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=99.91  E-value=1.3e-24  Score=156.59  Aligned_cols=141  Identities=10%  Similarity=0.092  Sum_probs=104.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|. .+.||++. ....+..++  +.+++|||+|++++...+..+++++|++++|||++++.+|+.+ ..|
T Consensus        44 sLi~~l~~~~~~-~~~~t~~~-~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~-~~~  118 (192)
T 2b6h_A           44 TILYKLKLGEIV-TTIPTIGF-NVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQES-ADE  118 (192)
T ss_dssp             HHHHHHCSSCCE-EEEEETTE-EEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHHhCCcc-ccCCcCce-eEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            467888888886 46888873 234455555  8899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-H----HHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-L----RKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|+++|+||+|+.+..            ..++... +    +...++ +++++||++|.|++++|++|
T Consensus       119 l~~~~~~~~~~~~piilv~NK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~~~SA~~g~gi~~l~~~l  185 (192)
T 2b6h_A          119 LQKMLQEDELRDAVLLVFANKQDMPNAM------------PVSELTDKLGLQHLRSRTW-YVQATCATQGTGLYDGLDWL  185 (192)
T ss_dssp             HHHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCSSCCE-EEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHhcccccCCCeEEEEEECCCCCCCC------------CHHHHHHHhCcccccCCce-EEEECcCCCcCCHHHHHHHH
Confidence            77665432  579999999999996532            1111111 1    112233 68999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      ++.+.+
T Consensus       186 ~~~i~~  191 (192)
T 2b6h_A          186 SHELSK  191 (192)
T ss_dssp             HHHTTT
T ss_pred             HHHHhc
Confidence            987753

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.91  E-value=3.6e-25  Score=170.59  Aligned_cols=154  Identities=13%  Similarity=0.136  Sum_probs=110.8

Q ss_pred             eeehhhhhCCCCC---cccCceeeceeeEEEECCeEEEEEEEeCCCCccccc---cCcccccCccEEEEEEeCCCh--hh
Q 030337            3 FIYIICNYSLGKQ---DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR---LRPLSYRGADVFILAFSLISK--AS   74 (179)
Q Consensus         3 ~l~~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~~~~i~v~d~~~~--~s   74 (179)
                      +|+.++.++.+..   .+.||+|..+..   ++ ..++++||||+|||+|+.   .++.|+++++++|+|||++++  ++
T Consensus        14 SLl~~~~~~~~~~~~~~~~~Tig~~~~~---v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~   89 (331)
T 3r7w_B           14 SICKVVFHNMQPLDTLYLESTSNPSLEH---FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINA   89 (331)
T ss_dssp             HHHHHHHSCCCSGGGTTCCCCCSCCCEE---EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHH
T ss_pred             HHHHHHHcCCCCCccceecCeeeeeeEE---Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHH
Confidence            3555555543322   367899876653   23 348999999999999964   357899999999999999998  33


Q ss_pred             HHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH----hCCCeEEEeccCCCCcHHH
Q 030337           75 YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL----IGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~e~Sa~~~~~i~~  150 (179)
                      ++.+ ..|+..+....+++|++|||||+|+..+...   ....+.+..++++++++.    .++ .|+||||++ .+|.+
T Consensus        90 ~~~l-~~~l~~~~~~~~~ipillvgNK~DL~~~~~R---~~~~R~V~~~~~~~la~~~~~~~~i-~f~eTSAkd-~nV~e  163 (331)
T 3r7w_B           90 ITNL-AMIIEYAYKVNPSINIEVLIHKVDGLSEDFK---VDAQRDIMQRTGEELLELGLDGVQV-SFYLTSIFD-HSIYE  163 (331)
T ss_dssp             HHHH-HHHHHHHHHHCTTCEEEEECCCCCSSCSHHH---HHHHHHHHHHHHHTTSSSSCSCCCE-EEECCCSSS-SHHHH
T ss_pred             HHHH-HHHHHHHhhcCCCCcEEEEEECcccCchhhh---hhHHHHhhHHHHHHHHhhcccccCc-eEEEeccCC-CcHHH
Confidence            3333 3445555555678999999999999753200   000124667777888885    566 899999998 59999


Q ss_pred             HHHHHHHHHhCCchhh
Q 030337          151 VFDAAIKVVLQPPKQK  166 (179)
Q Consensus       151 ~f~~l~~~i~~~~~~~  166 (179)
                      +|..+++.++......
T Consensus       164 AFs~iv~~li~~~~~l  179 (331)
T 3r7w_B          164 AFSRIVQKLIPELSFL  179 (331)
T ss_dssp             HHHHHHTTSSTTHHHH
T ss_pred             HHHHHHHHHHhhHHHH
Confidence            9999999888655443

>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=99.91  E-value=8.3e-24  Score=150.78  Aligned_cols=138  Identities=14%  Similarity=0.185  Sum_probs=110.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.| ..+.||+|..+ +.+.+++  +.+++|||+|++++..++..+++++|++++|||++++.+|+.+ ..|
T Consensus        36 sli~~l~~~~~-~~~~~t~~~~~-~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~~  110 (181)
T 2h17_A           36 TILYQFSMNEV-VHTSPTIGSNV-EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVT-REE  110 (181)
T ss_dssp             HHHHHHHTTSC-EEEECCSSSSC-EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHH-HHH
T ss_pred             HHHHHHhcCCC-CccCCcCceee-EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            47889999999 77889998443 5566666  8899999999999999999999999999999999999999998 666


Q ss_pred             HHHHhhc--CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH-----HhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK-----LIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~--~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+...  ..+.|+++|+||+|+...            ...++..+...     ..++ .++++||++|.|++++|++|
T Consensus       111 ~~~~~~~~~~~~~piilv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l  177 (181)
T 2h17_A          111 LYKMLAHEDLRKAGLLIFANKQDVKEC------------MTVAEISQFLKLTSIKDHQW-HIQACCALTGEGLCQGLEWM  177 (181)
T ss_dssp             HHHHHTCGGGTTCEEEEEEECTTSTTC------------CCHHHHHHHTTGGGCCSSCE-EEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHHhChhhCCCeEEEEEECCCcccC------------CCHHHHHHHhCcccccCCce-EEEEccCCCCcCHHHHHHHH
Confidence            6666544  258999999999999652            22333333321     2333 79999999999999999999


Q ss_pred             HHH
Q 030337          156 IKV  158 (179)
Q Consensus       156 ~~~  158 (179)
                      ++.
T Consensus       178 ~~~  180 (181)
T 2h17_A          178 MSR  180 (181)
T ss_dssp             HTC
T ss_pred             Hhh
Confidence            764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.91  E-value=4e-24  Score=153.24  Aligned_cols=141  Identities=18%  Similarity=0.141  Sum_probs=109.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+ +.||+|.. ...+.+++  +.+++|||||++++...+..+++++|++++|||++++.+++.+ ..|
T Consensus        37 sli~~l~~~~~~~-~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~~  111 (189)
T 2x77_A           37 SILYRLHLGDVVT-TVPTVGVN-LETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVA-KHE  111 (189)
T ss_dssp             HHHHHTCCSCCEE-ECSSTTCC-EEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHH-HHH
T ss_pred             HHHHHHHcCCCCC-cCCCCceE-EEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHH-HHH
Confidence            4677888888864 78888732 34555665  7899999999999999999999999999999999999999998 566


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-----HHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-----LRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|+++|+||+|+....            ..++...     .+...++ +++++||++|.|++++|+++
T Consensus       112 ~~~~~~~~~~~~~piilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l  178 (189)
T 2x77_A          112 LYALLDEDELRKSLLLIFANKQDLPDAA------------SEAEIAEQLGVSSIMNRTW-TIVKSSSKTGDGLVEGMDWL  178 (189)
T ss_dssp             HHHHHTCSTTTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHhhhhcCCCeEEEEEECCCCcCCC------------CHHHHHHHhChhhccCCce-EEEEccCCCccCHHHHHHHH
Confidence            66554432  579999999999996532            1112111     1222344 79999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      .+.+.+
T Consensus       179 ~~~i~~  184 (189)
T 2x77_A          179 VERLRE  184 (189)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998754

>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=99.90  E-value=5.6e-25  Score=157.43  Aligned_cols=149  Identities=21%  Similarity=0.311  Sum_probs=108.6

Q ss_pred             eeehhhhhC--CCCCcccCceeecee-eEEEE---CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh-hhH
Q 030337            3 FIYIICNYS--LGKQDYVPTVFDNFS-ANVVV---DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK-ASY   75 (179)
Q Consensus         3 ~l~~~~~~~--~f~~~~~pt~~~~~~-~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~-~s~   75 (179)
                      +|+.+++.+  .|...+.||+|..+. +.+.+   ++..+.+++|||+|+++|..+++.++++++++++|||++++ .++
T Consensus        17 tLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~   96 (184)
T 2zej_A           17 TLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEV   96 (184)
T ss_dssp             HHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHH
T ss_pred             HHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHH
Confidence            467788874  688889999986554 44433   34678999999999999999999999999999999999997 589


Q ss_pred             HHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCcccc---HHHHHHHHHHhCCC---eEEEeccCCCC-cH
Q 030337           76 ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT---TAQGEELRKLIGSP---AYIECSSKTQQ-NV  148 (179)
Q Consensus        76 ~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~---~~~e~Sa~~~~-~i  148 (179)
                      +.+ ..|+..+....++.|+++||||+|+.....          ++   .+.+..+++.+++.   .++++||++|. ++
T Consensus        97 ~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~  165 (184)
T 2zej_A           97 DAM-KPWLFNIKARASSSPVILVGTHLDVSDEKQ----------RKACMSKITKELLNKRGFPAIRDYHFVNATEESDAL  165 (184)
T ss_dssp             HTH-HHHHHHHHHHCTTCEEEEEEECGGGCCHHH----------HHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHH
T ss_pred             HHH-HHHHHHHHhhCCCCcEEEEEECCCcccchh----------hHHHHHHHHHHHHHhcCCcchhheEEEecccCchhH
Confidence            888 789988877666899999999999965432          22   34455666667773   38999999997 99


Q ss_pred             HHHHHHHHHHHhCC
Q 030337          149 KAVFDAAIKVVLQP  162 (179)
Q Consensus       149 ~~~f~~l~~~i~~~  162 (179)
                      +++++.+.+.+.+.
T Consensus       166 ~~l~~~i~~~~~~~  179 (184)
T 2zej_A          166 AKLRKTIINESLNF  179 (184)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887653

>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=99.90  E-value=8.9e-24  Score=150.86  Aligned_cols=141  Identities=18%  Similarity=0.182  Sum_probs=107.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.| ..+.||+|. ..+.+.+++  +.+++|||+|++.+...+..++++++++++|||++++.+|+.+ ..|
T Consensus        31 sL~~~l~~~~~-~~~~~t~g~-~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~  105 (181)
T 1fzq_A           31 TLLKQLASEDI-SHITPTQGF-NIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEET-GQE  105 (181)
T ss_dssp             HHHHHHCCSCC-EEEEEETTE-EEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHhcCCC-CcccCcCCe-EEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHH-HHH
Confidence            46777877755 567899883 335566665  7899999999999999999999999999999999999999998 667


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+... . .+.|+++|+||+|+.+..            ..++..+..     ...++ .++++||++|.|++++|+++
T Consensus       106 ~~~~~~~~~~~~~piilv~NK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gi~~l~~~l  172 (181)
T 1fzq_A          106 LTELLEEEKLSCVPVLIFANKQDLLTAA------------PASEIAEGLNLHTIRDRVW-QIQSCSALTGEGVQDGMNWV  172 (181)
T ss_dssp             HHHHTTCGGGTTCCEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHhChhhcCCCEEEEEECcCcccCC------------CHHHHHHHhCchhccCCce-EEEEccCCCCCCHHHHHHHH
Confidence            6665433 2 579999999999997532            222222211     11233 79999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      ++.+.+
T Consensus       173 ~~~~~~  178 (181)
T 1fzq_A          173 CKNVNA  178 (181)
T ss_dssp             HHTC--
T ss_pred             HHHHHh
Confidence            987754

>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=99.90  E-value=6e-24  Score=153.50  Aligned_cols=148  Identities=15%  Similarity=0.222  Sum_probs=110.8

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEE--E-CCeEEEEEEEeCCCCccccccC---cccccCccEEEEEEeCCCh--hh
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVV--V-DGSTVNLGLWDTAGQEDYNRLR---PLSYRGADVFILAFSLISK--AS   74 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~--~-~~~~~~~~i~D~~G~~~~~~~~---~~~~~~~~~~i~v~d~~~~--~s   74 (179)
                      |+. ++.+.|.+.  +|++..+. +.+.  + ++..+.++||||+|+++|....   ..++++++++|+|||++++  ++
T Consensus        36 Li~-~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~  112 (196)
T 3llu_A           36 IQK-VVFHKMSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEA  112 (196)
T ss_dssp             HHH-HHHSCCCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHH
T ss_pred             HHH-HHHhcCCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHH
Confidence            444 556677766  56654443 3332  3 3677899999999999987765   7899999999999999998  67


Q ss_pred             HHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH----HhCCCeEEEeccCCCCcHHH
Q 030337           75 YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK----LIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      ++.+ ..|+..+....+++|++|||||+|+.++...   ....+.+..+.+..+++    ..++ .++++||++ .||++
T Consensus       113 ~~~~-~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~v~~~~~~~~~~~~~~~~~~-~~~e~Sa~~-~~v~~  186 (196)
T 3llu_A          113 LTRL-HITVSKAYKVNPDMNFEVFIHKVDGLSDDHK---IETQRDIHQRANDDLADAGLEKLHL-SFYLTSIYD-HSIFE  186 (196)
T ss_dssp             HHHH-HHHHHHHHHHCTTCEEEEEEECGGGSCHHHH---HHHHHHHHHHHHHHHHHTTCTTSCE-EEEEECTTS-THHHH
T ss_pred             HHHH-HHHHHHHHhcCCCCcEEEEEeccccCchhhh---hHHHhHHHHHHHHHHHHhhhhcCCc-ceEEEEech-hhHHH
Confidence            7777 6777777655678999999999998652100   00012356666778888    6676 899999999 99999


Q ss_pred             HHHHHHHHHh
Q 030337          151 VFDAAIKVVL  160 (179)
Q Consensus       151 ~f~~l~~~i~  160 (179)
                      +|+.+++.++
T Consensus       187 ~f~~l~~~li  196 (196)
T 3llu_A          187 AFSKVVQKLI  196 (196)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhC
Confidence            9999998763

>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=99.90  E-value=1.2e-22  Score=147.03  Aligned_cols=147  Identities=30%  Similarity=0.501  Sum_probs=126.1

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++....|...+.||+|..+ ...+.+++..+.+++||++|+++++..+..++++++++++|||++++.+++++ ..
T Consensus        20 TLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   98 (199)
T 2f9l_A           20 NLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENV-ER   98 (199)
T ss_dssp             HHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHH-HH
Confidence            46788999999999999998555 47788899999999999999999999999999999999999999999999988 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... .+.|+++|+||+|+.+...          +..+++..++...++ .++++||+++.|++++|+++.+.+.
T Consensus        99 ~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~----------~~~~~a~~l~~~~~~-~~~d~Sal~~~~i~~l~~~l~~~~~  167 (199)
T 2f9l_A           99 WLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNNL-SFIETSALDSTNVEEAFKNILTEIY  167 (199)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEEECcccccccC----------cCHHHHHHHHHHcCC-eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            887776654 4789999999999976443          667788999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       168 ~  168 (199)
T 2f9l_A          168 R  168 (199)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.90  E-value=2.7e-22  Score=144.42  Aligned_cols=145  Identities=30%  Similarity=0.505  Sum_probs=127.7

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++....|...+.||+|..+ ...+.+++..+.+++||++|++++..++..++++++++++|||+++..+|+++ ..
T Consensus        44 TLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~  122 (191)
T 1oix_A           44 NLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENV-ER  122 (191)
T ss_dssp             HHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHH-HH
Confidence            46788999999999999999666 47888999999999999999999999999999999999999999999999988 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.... .+.|+++++||+|+.+...          +..+.+..++...++ .++++||+++.|++++|+++.+.+
T Consensus       123 ~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~----------~~~~~a~~l~~~~~~-~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          123 WLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNGL-SFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEECcccccccc----------cCHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHh
Confidence            887776644 4789999999999976443          667788999999998 899999999999999999998875

>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=99.89  E-value=3.5e-23  Score=147.34  Aligned_cols=140  Identities=14%  Similarity=0.157  Sum_probs=107.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.| ..+.||+|.. ...+.+++  +.+.+|||+|++++...+..+++++|++++|||++++.+++.+ ..|
T Consensus        33 sli~~l~~~~~-~~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~-~~~  107 (183)
T 1moz_A           33 TILYRLQIGEV-VTTKPTIGFN-VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTA-SKE  107 (183)
T ss_dssp             HHHHHTCCSEE-EEECSSTTCC-EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHH-HHH
T ss_pred             HHHHHHhcCCc-CccCCcCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHH-HHH
Confidence            46778888888 6788998833 35566665  8899999999999999999999999999999999999999998 677


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-----hCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-----IGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +..+....  .+.|+++|+||+|+...            ...++..+....     .+. +++++||++|.|++++|+++
T Consensus       108 ~~~~~~~~~~~~~piilv~nK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~l  174 (183)
T 1moz_A          108 LHLMLQEEELQDAALLVFANKQDQPGA------------LSASEVSKELNLVELKDRSW-SIVASSAIKGEGITEGLDWL  174 (183)
T ss_dssp             HHHHTTSSTTSSCEEEEEEECTTSTTC------------CCHHHHHHHTTTTTCCSSCE-EEEEEBGGGTBTHHHHHHHH
T ss_pred             HHHHHcChhhCCCeEEEEEECCCCCCC------------CCHHHHHHHhCcccccCCce-EEEEccCCCCcCHHHHHHHH
Confidence            77766543  58999999999999653            222333332221     222 68999999999999999999


Q ss_pred             HHHHh
Q 030337          156 IKVVL  160 (179)
Q Consensus       156 ~~~i~  160 (179)
                      .+.+.
T Consensus       175 ~~~~~  179 (183)
T 1moz_A          175 IDVIK  179 (183)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99875

>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=99.89  E-value=5.2e-24  Score=166.67  Aligned_cols=150  Identities=18%  Similarity=0.144  Sum_probs=108.7

Q ss_pred             CCCCCcccCceeeceeeE----------EEECC----eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCC------
Q 030337           11 SLGKQDYVPTVFDNFSAN----------VVVDG----STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI------   70 (179)
Q Consensus        11 ~~f~~~~~pt~~~~~~~~----------~~~~~----~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~------   70 (179)
                      ..|.++|.||+++.+...          +.+++    +.+.++||||+|+++++.+|..|+++++++|+|||++      
T Consensus       144 ri~~~~Y~PT~~D~~~~r~~T~Gi~e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l  223 (354)
T 2xtz_A          144 RLSDINYIPTKEDVLYARVRTTGVVEIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTL  223 (354)
T ss_dssp             HHHSTTCCCCHHHHHHCCCCCCSEEEEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBC
T ss_pred             HHhcCCCCCCchheeeecccccceeeEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECccccccc
Confidence            346788999988665422          22444    6799999999999999999999999999999999998      


Q ss_pred             ----ChhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccc-c------CCCC----CccccHHHHHHHHHHh-
Q 030337           71 ----SKASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFF-I------DHPG----AVPITTAQGEELRKLI-  132 (179)
Q Consensus        71 ----~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~-~------~~~~----~~~~~~~~~~~~~~~~-  132 (179)
                          +..+|++. ..|+..+....  +++|++|||||+|+..+.... +      ....    ..+.+.+++..++... 
T Consensus       224 ~e~~~~~s~~~~-~~~~~~i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f  302 (354)
T 2xtz_A          224 FEDEQKNRMMET-KELFDWVLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKF  302 (354)
T ss_dssp             SSCTTSBHHHHH-HHHHHHHHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHH
T ss_pred             ccccchhHHHHH-HHHHHHHHhccccCCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHH
Confidence                78899998 67777776542  689999999999996543100 0      0000    0122356677764431 


Q ss_pred             -------------C-CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          133 -------------G-SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       133 -------------~-~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                                   + ...+++|||+++.||.++|+++.+.+++
T Consensus       303 ~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~~I~~  345 (354)
T 2xtz_A          303 EELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDETLRR  345 (354)
T ss_dssp             HHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhccccccccCcceEEEEEEeecchhHHHHHHHHHHHHHH
Confidence                         1 2246899999999999999999998864

>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=99.89  E-value=9.2e-24  Score=158.82  Aligned_cols=144  Identities=17%  Similarity=0.206  Sum_probs=112.2

Q ss_pred             eeehhhhh---CCCCCcccCce-eecee-eEEE--------------ECCeEEEEEEEe---------------------
Q 030337            3 FIYIICNY---SLGKQDYVPTV-FDNFS-ANVV--------------VDGSTVNLGLWD---------------------   42 (179)
Q Consensus         3 ~l~~~~~~---~~f~~~~~pt~-~~~~~-~~~~--------------~~~~~~~~~i~D---------------------   42 (179)
                      +|+.+|+.   +.|...+.||+ +..+. +.+.              +++..+.++|||                     
T Consensus        43 sLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~  122 (255)
T 3c5h_A           43 CLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPY  122 (255)
T ss_dssp             HHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CEEEEEECCCEETTTCSBTTGGGCCCH
T ss_pred             HHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEEEEEEEEccccccccccccccccccccc
Confidence            57889999   77888899987 54332 3222              467889999999                     


Q ss_pred             --CCCCccccccCccccc---------------------CccEEEEEEeCCCh--hhHHHHHHHHHHHHhhc-C-CCCcE
Q 030337           43 --TAGQEDYNRLRPLSYR---------------------GADVFILAFSLISK--ASYENVAKKWIPELRHY-A-PGVPI   95 (179)
Q Consensus        43 --~~G~~~~~~~~~~~~~---------------------~~~~~i~v~d~~~~--~s~~~~~~~~~~~i~~~-~-~~~pi   95 (179)
                        ++|+++|..++..+++                     ++|++|+|||++++  .+|+.+ ..|+..+... . .++|+
T Consensus       123 ~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~-~~~l~~i~~~~~~~~~pi  201 (255)
T 3c5h_A          123 IKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQ-LKFVSNLYNQLAKTKKPI  201 (255)
T ss_dssp             HHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHH-HHHHHHHHHHHHHTTCCE
T ss_pred             cccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHH-HHHHHHHHHHhccCCCCE
Confidence              8899999999999998                     89999999999999  999998 7898888765 2 57999


Q ss_pred             EEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh-CCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           96 ILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI-GSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        96 ilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +|||||+|+.....          +  +++..+++.. ++ .++++||++|.|++++|++|++.+.
T Consensus       202 ilV~NK~Dl~~~~~----------v--~~~~~~~~~~~~~-~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          202 VVVLTKCDEGVERY----------I--RDAHTFALSKKNL-QVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             EEEEECGGGBCHHH----------H--HHHHHHHHTSSSC-CEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             EEEEEcccccccHH----------H--HHHHHHHHhcCCC-eEEEEECCCCCCHHHHHHHHHHHhc
Confidence            99999999965332          3  5677777764 66 8999999999999999999998763

>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=99.89  E-value=8.3e-23  Score=159.85  Aligned_cols=146  Identities=18%  Similarity=0.225  Sum_probs=109.3

Q ss_pred             CCCCcccCceeece----------eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC----------
Q 030337           12 LGKQDYVPTVFDNF----------SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS----------   71 (179)
Q Consensus        12 ~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~----------   71 (179)
                      .|.++|.||..+.+          .+.+.+++  +.+++|||+|+++++..|..++++++++|+|||+++          
T Consensus       161 i~~~~Y~PT~~Dil~~~~~T~Gi~~~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~  238 (353)
T 1cip_A          161 IAQPNYIPTQQDVLRTRVKTTGIVETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEE  238 (353)
T ss_dssp             HTSTTCCCCHHHHHTCCCCCCSEEEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEE
T ss_pred             HhcCCCCCCccccccccCceeceEEEEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccch
Confidence            45666777654422          23344554  889999999999999999999999999999999999          


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccc-----cCCCCCccccHHHHHHHHHH-----------hC
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFF-----IDHPGAVPITTAQGEELRKL-----------IG  133 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~-----------~~  133 (179)
                      ..++++. ..|+..+....  .++|++|+|||+|+..+....     ......-+++.+++..++..           .+
T Consensus       239 ~nr~~e~-~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~  317 (353)
T 1cip_A          239 MNRMHES-MKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKE  317 (353)
T ss_dssp             EEHHHHH-HHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCC
T ss_pred             hhhHHHH-HHHHHHHHcCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCc
Confidence            5678888 56777766532  589999999999996432100     00011113667888888773           34


Q ss_pred             CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       134 ~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      + .+++|||+++.||.++|+++.+.+++
T Consensus       318 ~-~~~etSA~~~~nV~~vF~~v~~~i~~  344 (353)
T 1cip_A          318 I-YTHFTCATDTKNVQFVFDAVTDVIIK  344 (353)
T ss_dssp             E-EEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             e-EEEEEECcCchhHHHHHHHHHHHHHH
Confidence            4 78999999999999999999998864

>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=99.88  E-value=1e-22  Score=148.72  Aligned_cols=146  Identities=14%  Similarity=0.136  Sum_probs=103.9

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCe-EEEEEEEeCCCCccccc-cCcccccCccEEEEEEeCCChh-hHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGS-TVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKA-SYENVA   79 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~~~~i~v~d~~~~~-s~~~~~   79 (179)
                      +|+.+++.+.|.+.+.|+..+...  +.+++. .+.++||||||++++.. ++..++++++++|+|||+++.. ++....
T Consensus        22 sli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~   99 (214)
T 2fh5_B           22 LLFVRLLTGQYRDTQTSITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVA   99 (214)
T ss_dssp             HHHHHHHHSCCCCBCCCCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHH
T ss_pred             HHHHHHhCCCcccccCCcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHH
Confidence            478899999999988766543332  556644 68999999999999988 7888999999999999999964 566664


Q ss_pred             HHHHHHHhhc---CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH--------------------------
Q 030337           80 KKWIPELRHY---APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK--------------------------  130 (179)
Q Consensus        80 ~~~~~~i~~~---~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------  130 (179)
                      ..|...+...   ..+.|++||+||+|+.....        .....+.......                          
T Consensus       100 ~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--------~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~  171 (214)
T 2fh5_B          100 EFLYQVLIDSMALKNSPSLLIACNKQDIAMAKS--------AKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKK  171 (214)
T ss_dssp             HHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCC--------HHHHHHHHHHHHHHHHHHCC------------CCCSSCT
T ss_pred             HHHHHHHhhhhhcccCCCEEEEEECCCCCCccc--------HHHHHHHHHHHHHHHhccchhccccccCCccccccccCC
Confidence            5666655542   24799999999999975431        0000111111111                          


Q ss_pred             -------Hh--CCCeEEEeccCCC------CcHHHHHHHHHHHH
Q 030337          131 -------LI--GSPAYIECSSKTQ------QNVKAVFDAAIKVV  159 (179)
Q Consensus       131 -------~~--~~~~~~e~Sa~~~------~~i~~~f~~l~~~i  159 (179)
                             .+  ++ .|++|||++|      .||+++|++|.+.+
T Consensus       172 ~~~~~~~~~~~~~-~~~e~SAk~g~~~~~~~gv~~lf~~l~~~~  214 (214)
T 2fh5_B          172 GKEFEFSQLPLKV-EFLECSAKGGRGDTGSADIQDLEKWLAKIA  214 (214)
T ss_dssp             TSCCCGGGSSSCE-EEEECBCC-------CCBCHHHHHHHHHHC
T ss_pred             CCCcccccCCCcE-EEEEeeccCCCccccccChHHHHHHHHHhC
Confidence                   01  33 7999999999      99999999998753

>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=99.88  E-value=8.6e-23  Score=157.89  Aligned_cols=152  Identities=16%  Similarity=0.108  Sum_probs=113.4

Q ss_pred             hhhhhCCCCCc-------ccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCC--------
Q 030337            6 IICNYSLGKQD-------YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI--------   70 (179)
Q Consensus         6 ~~~~~~~f~~~-------~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~--------   70 (179)
                      .|+....|.|.       +.||+|. ....+.+++  +.++||||+||++++.+|..|+++++++|+|||++        
T Consensus       133 ~Ri~~~~Y~PT~~Dilr~r~~TiGi-~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d  209 (327)
T 3ohm_A          133 DRVADPSYLPTQQDVLRVRVPTTGI-IEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVE  209 (327)
T ss_dssp             HHHHSTTCCCCHHHHTTCCCCCCSE-EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSS
T ss_pred             HHHhccCCCccccchhcccCceeeE-EEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccc
Confidence            46677778777       7788883 234455555  89999999999999999999999999999999665        


Q ss_pred             --ChhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccc-----cCCC-CCccccHHHHHHHHH----------
Q 030337           71 --SKASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFF-----IDHP-GAVPITTAQGEELRK----------  130 (179)
Q Consensus        71 --~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~-----~~~~-~~~~~~~~~~~~~~~----------  130 (179)
                        +..++++. ..|+..+....  .++|++|+|||+|+..+.-..     .... ...+.+.+++..++.          
T Consensus       210 ~~~~nr~~es-~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~  288 (327)
T 3ohm_A          210 SDNENRMEES-KALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDS  288 (327)
T ss_dssp             CTTSBHHHHH-HHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTT
T ss_pred             cccHhHHHHH-HHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccc
Confidence              66788877 45666655432  589999999999997643100     0000 012356778887743          


Q ss_pred             HhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          131 LIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       131 ~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ..++ .+++|||+++.||..+|..+.+.+++.
T Consensus       289 ~~~i-~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          289 DKII-YSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             TSCE-EEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             cCCc-EEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            3444 688999999999999999999998754

>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=99.88  E-value=8.5e-23  Score=161.70  Aligned_cols=148  Identities=18%  Similarity=0.220  Sum_probs=109.0

Q ss_pred             CCCCcccCceeecee----------eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC----------
Q 030337           12 LGKQDYVPTVFDNFS----------ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS----------   71 (179)
Q Consensus        12 ~f~~~~~pt~~~~~~----------~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~----------   71 (179)
                      .+.++|.||+++.+.          +.+.+++  +.++||||+|+++++.+|..|+++++++|+|||+++          
T Consensus       185 i~~~~Y~PT~~Dil~~r~~TiGi~~~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~  262 (402)
T 1azs_C          185 IKQDDYVPSDQDLLRCRVLTSGIFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQ  262 (402)
T ss_dssp             HTCTTCCCCHHHHHHCCCCCCSEEEEEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSC
T ss_pred             hhccccCCccccccccccceeeeEEEEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccc
Confidence            457888888765442          3345555  899999999999999999999999999999999999          


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccc---ccc-------C---------CC-CCccccHHHHHHHH
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQ---FFI-------D---------HP-GAVPITTAQGEELR  129 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~---~~~-------~---------~~-~~~~~~~~~~~~~~  129 (179)
                      ..+|+++ ..|+..+....  .++|++|||||+|+..+..   .++       -         .+ .....+.+++..++
T Consensus       263 ~ns~~e~-~~~~~~i~~~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi  341 (402)
T 1azs_C          263 TNRLQEA-LNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFI  341 (402)
T ss_dssp             SBHHHHH-HHHHHHHHTCTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHH
T ss_pred             cchHHHH-HHHHHHHHhcccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHH
Confidence            8899998 67888776542  6899999999999965432   000       0         00 00111245566553


Q ss_pred             -----HH--------hCCCeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          130 -----KL--------IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       130 -----~~--------~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                           ..        .++ .+++|||+++.||.++|.++.+.+++..
T Consensus       342 ~~kF~~~~~~~~~~~~~~-~~~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          342 RDEFLRISTASGDGRHYC-YPHFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             HHHHHHHHHTSCTTSSCE-EEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCccc-EEEEEEeecCcCHHHHHHHHHHHHHHHH
Confidence                 22        133 5789999999999999999988887543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.87  E-value=1.3e-21  Score=138.42  Aligned_cols=140  Identities=16%  Similarity=0.194  Sum_probs=104.2

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|.+.+.|+++..+ ...+.+++.  .+.+|||+|++++..++..+++.+|++++|||++++...+..  .
T Consensus        23 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~--~   98 (178)
T 2lkc_A           23 TLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTV--E   98 (178)
T ss_dssp             HHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHH--H
T ss_pred             HHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH--H
Confidence            47889999999998888887544 366777874  577999999999999999999999999999999984333322  1


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC--------CeEEEeccCCCCcHHHHHH
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS--------PAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ++..+..  .+.|+++|+||+|+...             ..++.....+..+.        ..++++||++|.|++++|+
T Consensus        99 ~l~~~~~--~~~p~ilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  163 (178)
T 2lkc_A           99 AINHAKA--ANVPIIVAINKMDKPEA-------------NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLE  163 (178)
T ss_dssp             HHHHHGG--GSCCEEEEEETTTSSCS-------------CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHH
T ss_pred             HHHHHHh--CCCCEEEEEECccCCcC-------------CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHH
Confidence            2223332  37899999999999652             11222222222221        3799999999999999999


Q ss_pred             HHHHHHhC
Q 030337          154 AAIKVVLQ  161 (179)
Q Consensus       154 ~l~~~i~~  161 (179)
                      +|++.+..
T Consensus       164 ~l~~~~~~  171 (178)
T 2lkc_A          164 MILLVSEM  171 (178)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHhhhh
Confidence            99987754

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.87  E-value=6.7e-22  Score=153.74  Aligned_cols=142  Identities=12%  Similarity=0.125  Sum_probs=102.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+.+ ||++..+. .+..++  +.++||||+|++.|..++..+++++|++|+|||++++.+|+.+...|
T Consensus       180 sLl~~l~~~~~~~~~-pT~~~~~~-~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~  255 (329)
T 3o47_A          180 TILYKLKLGEIVTTI-PTIGFNVE-TVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREEL  255 (329)
T ss_dssp             HHHHHTCSSCCEEEE-EETTEEEE-EEEETT--EEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHH
T ss_pred             HHHHHHhCCCCCCcc-cccceEEE-EEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHH
Confidence            477888888887654 78774432 333444  88999999999999999999999999999999999999999984444


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...+.... +++|++||+||+|+....            ..++.....     ...++ .++++||++|.||+++|++|+
T Consensus       256 ~~~~~~~~~~~~piilV~NK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~~vSAk~g~gi~el~~~l~  322 (329)
T 3o47_A          256 MRMLAEDELRDAVLLVFANKQDLPNAM------------NAAEITDKLGLHSLRHRNW-YIQATCATSGDGLYEGLDWLS  322 (329)
T ss_dssp             HHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHHTCTTCCSSCE-EEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHhhhccCCCeEEEEEECccCCccc------------CHHHHHHHhchhhhhcCCC-EEEEEECCCCcCHHHHHHHHH
Confidence            44444433 589999999999997532            111211111     11233 689999999999999999999


Q ss_pred             HHHhC
Q 030337          157 KVVLQ  161 (179)
Q Consensus       157 ~~i~~  161 (179)
                      +.+.+
T Consensus       323 ~~l~~  327 (329)
T 3o47_A          323 NQLRN  327 (329)
T ss_dssp             HHHTC
T ss_pred             HHHHh
Confidence            98865

>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=99.87  E-value=9.2e-22  Score=154.43  Aligned_cols=146  Identities=16%  Similarity=0.152  Sum_probs=100.0

Q ss_pred             CCCCcccCceeecee----------eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC----------
Q 030337           12 LGKQDYVPTVFDNFS----------ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS----------   71 (179)
Q Consensus        12 ~f~~~~~pt~~~~~~----------~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~----------   71 (179)
                      .+.++|.||.++.+.          +.+.+++  +.++||||+|++.++..|..++++++++|+|||+++          
T Consensus       169 i~~~~Y~PT~~Dil~~r~~T~Gi~~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~  246 (362)
T 1zcb_A          169 LGVPDYIPSQQDILLARRPTKGIHEYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQ  246 (362)
T ss_dssp             HTSTTCCCCHHHHHHCCCCCSSEEEEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEE
T ss_pred             HhcCCCCCChhhhhhccCCccceEEEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECcccccccccccc
Confidence            345666776543321          3344554  889999999999999999999999999999999999          


Q ss_pred             hhhHHHHHHHHHHHHhhc--CCCCcEEEEEeCCCcccccccc-----cCCCCC-ccccHHHHHHHHH-----------Hh
Q 030337           72 KASYENVAKKWIPELRHY--APGVPIILVGTKLDLRDDKQFF-----IDHPGA-VPITTAQGEELRK-----------LI  132 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~D~~~~~~~~-----~~~~~~-~~~~~~~~~~~~~-----------~~  132 (179)
                      ..++++. ..|+..+...  ..++|++|++||+|+..+....     ...... .+++.+++..++.           ..
T Consensus       247 ~n~~~es-~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~  325 (362)
T 1zcb_A          247 TNRLTES-LNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQR  325 (362)
T ss_dssp             EEHHHHH-HHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--
T ss_pred             ccHHHHH-HHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCC
Confidence            7899988 5666666543  2689999999999997432100     000011 1256677777662           23


Q ss_pred             CCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       133 ~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ++ .+++|||+++.||.++|+++.+.+++
T Consensus       326 ~~-~~~~tSA~d~~nV~~vF~~v~~~i~~  353 (362)
T 1zcb_A          326 PL-YHHFTTAINTENIRLVFRDVKDTILH  353 (362)
T ss_dssp             CC-EEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ce-EEEEEecCCchhHHHHHHHHHHHHHH
Confidence            34 78999999999999999999998864

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.86  E-value=9.7e-22  Score=151.49  Aligned_cols=150  Identities=17%  Similarity=0.229  Sum_probs=117.8

Q ss_pred             eeehhhhhC--CCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCccc-----cccCcccccCccEEEEEEeCCChhh
Q 030337            3 FIYIICNYS--LGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-----NRLRPLSYRGADVFILAFSLISKAS   74 (179)
Q Consensus         3 ~l~~~~~~~--~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~~~~i~v~d~~~~~s   74 (179)
                      +|+.++.++  .+. +.+.||++..+. .+.+++ .+.++||||||++++     ...+..++++++++|+|||++++.+
T Consensus        18 SLi~~l~~~~~~~~~~~~~~Ti~~~~~-~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s   95 (307)
T 3r7w_A           18 SMRSIIFSNYSAFDTRRLGATIDVEHS-HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEV   95 (307)
T ss_dssp             HHHHHHHSCCCTGGGGGCCCCCSEEEE-EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCH
T ss_pred             HHHHHHHhCCCCccccCcCCccceEEE-EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhh
Confidence            467777777  444 467888886555 234444 589999999999998     7788889999999999999999999


Q ss_pred             HHHHHHHHHH---HHhhcCCCCcEEEEEeCCCcccccccccCCCCCcc----ccHHHHHHHHHHhCC--CeEEEeccCCC
Q 030337           75 YENVAKKWIP---ELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVP----ITTAQGEELRKLIGS--PAYIECSSKTQ  145 (179)
Q Consensus        75 ~~~~~~~~~~---~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~--~~~~e~Sa~~~  145 (179)
                      |+++ ..|..   .+....+++|+++||||+|+.....        +.    +..+++.++++.+|.  .+++++||++ 
T Consensus        96 ~~~l-~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~--------r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-  165 (307)
T 3r7w_A           96 LKDI-EIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDK--------REELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-  165 (307)
T ss_dssp             HHHH-HHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHH--------HHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-
T ss_pred             HHHH-HHHHHHHHHHHHhCCCCeEEEEEecccccchhh--------hhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-
Confidence            9988 56644   4444456899999999999976221        12    455778899999983  5899999999 


Q ss_pred             CcHHHHHHHHHHHHhCCch
Q 030337          146 QNVKAVFDAAIKVVLQPPK  164 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~~~~~  164 (179)
                      .++.++|..+++.++....
T Consensus       166 ~~i~e~~~~iv~~li~~~~  184 (307)
T 3r7w_A          166 ESLYKAWSQIVCSLIPNMS  184 (307)
T ss_dssp             SHHHHHHHHHHHTTCSCHH
T ss_pred             ChHHHHHHHHHHHHcCCHH
Confidence            8999999999998765443

>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=99.85  E-value=1.4e-21  Score=151.65  Aligned_cols=152  Identities=16%  Similarity=0.082  Sum_probs=109.8

Q ss_pred             hhhhhCCCCCc-------ccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCC--------
Q 030337            6 IICNYSLGKQD-------YVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI--------   70 (179)
Q Consensus         6 ~~~~~~~f~~~-------~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~--------   70 (179)
                      .|+....|.|.       +.||+|... ..+.++  .+.++||||+||++++.+|..|+++++++|+|||++        
T Consensus       127 ~Ri~~~~Y~PT~~Dil~~~~~TiGi~~-~~~~~~--~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e  203 (340)
T 4fid_A          127 KRIAMEDYVPTEEDLIHNRTKTTGIHE-YDFVVK--DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYE  203 (340)
T ss_dssp             HHHSSTTCCCCHHHHHHSCCCCCSCEE-EEEESS--SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC-
T ss_pred             HHHhcccCCccccceeecccceeeeEE-EEEEee--eeeeccccCCCcccccccHHHHhccCCEEEEEEECCcccccccc
Confidence            45566677666       677777322 333334  489999999999999999999999999999999999        


Q ss_pred             --ChhhHHHHHHHHHHHHhhc-C-CCCcEEEEEeCCCcccccccc-----cCCCCCccccHHHHHHHHHHhC--------
Q 030337           71 --SKASYENVAKKWIPELRHY-A-PGVPIILVGTKLDLRDDKQFF-----IDHPGAVPITTAQGEELRKLIG--------  133 (179)
Q Consensus        71 --~~~s~~~~~~~~~~~i~~~-~-~~~piilv~nK~D~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~--------  133 (179)
                        +..++++. ..|+..+... . .++|++|+|||+|+..+.-..     ......-....+++..++....        
T Consensus       204 ~~~~nr~~es-~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~  282 (340)
T 4fid_A          204 DGNTSRLTES-IAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEE  282 (340)
T ss_dssp             -CCSBHHHHH-HHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEE
T ss_pred             ccccchHHHH-HHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhh
Confidence              77899888 4565555443 2 689999999999997532110     0001111124566655544322        


Q ss_pred             ------------------CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          134 ------------------SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       134 ------------------~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                                        ...++++||+++.||..+|..+.+.|++
T Consensus       283 ~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          283 MNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             SCC--------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             hhccccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence                              1267899999999999999999999886

>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=99.84  E-value=7e-21  Score=133.78  Aligned_cols=137  Identities=15%  Similarity=0.097  Sum_probs=100.4

Q ss_pred             eeehhhhhCCCCCcccCceee-ceeeEEEECCeEEEEEEEeCCCCcccccc------Cccccc--CccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFD-NFSANVVVDGSTVNLGLWDTAGQEDYNRL------RPLSYR--GADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~-~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~~--~~~~~i~v~d~~~~~   73 (179)
                      +|+.++..+.|...+.|++.. .....+.+++  ..+++|||+|++++...      ...+++  +++++++|+|+++.+
T Consensus        18 tL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~   95 (165)
T 2wji_A           18 TIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALE   95 (165)
T ss_dssp             HHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHH
T ss_pred             HHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchh
Confidence            467888888876666676543 3345566666  67999999999987632      355665  899999999999865


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      +.    ..|+..+.+.  +.|+++|+||+|+.....          +.. ++..+++.+++ +++++||++|.|++++|+
T Consensus        96 ~~----~~~~~~~~~~--~~p~ilv~nK~Dl~~~~~----------~~~-~~~~~~~~~~~-~~~~~SA~~~~~v~~l~~  157 (165)
T 2wji_A           96 RN----LYLTLQLMEM--GANLLLALNKMDLAKSLG----------IEI-DVDKLEKILGV-KVVPLSAAKKMGIEELKK  157 (165)
T ss_dssp             HH----HHHHHHHHHT--TCCEEEEEECHHHHHHTT----------CCC-CHHHHHHHHTS-CEEECBGGGTBSHHHHHH
T ss_pred             Hh----HHHHHHHHhc--CCCEEEEEEchHhccccC----------hhh-HHHHHHHHhCC-CEEEEEcCCCCCHHHHHH
Confidence            43    3466666553  799999999999965332          322 36778888887 899999999999999999


Q ss_pred             HHHHHH
Q 030337          154 AAIKVV  159 (179)
Q Consensus       154 ~l~~~i  159 (179)
                      ++.+.+
T Consensus       158 ~l~~~~  163 (165)
T 2wji_A          158 AISIAV  163 (165)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            998865

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.83  E-value=3e-21  Score=158.90  Aligned_cols=146  Identities=18%  Similarity=0.195  Sum_probs=107.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEE-------EE--CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANV-------VV--DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~-------~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~   73 (179)
                      +|+.++..+.|.+.+.||+|..+....       .+  ++..+.+.+|||+|++.+..++..++++++++|+|||+++.+
T Consensus        56 SLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~~  135 (535)
T 3dpu_A           56 SLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTDS  135 (535)
T ss_dssp             HHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGGG
T ss_pred             HHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCch
Confidence            478899999999999999997765332       12  234689999999999999999999999999999999998764


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                         .+ ..|+..+....++.|+++||||+|+.....          +..+.+..++...+. +++++||++|.||+++|+
T Consensus       136 ---~~-~~~~~~l~~~~~~~pvilV~NK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~~vSA~~g~gi~eL~~  200 (535)
T 3dpu_A          136 ---NK-HYWLRHIEKYGGKSPVIVVMNKIDENPSYN----------IEQKKINERFPAIEN-RFHRISCKNGDGVESIAK  200 (535)
T ss_dssp             ---GH-HHHHHHHHHHSSSCCEEEEECCTTTCTTCC----------CCHHHHHHHCGGGTT-CEEECCC-----CTTHHH
T ss_pred             ---hH-HHHHHHHHHhCCCCCEEEEEECCCcccccc----------cCHHHHHHHHHhcCC-ceEEEecCcccCHHHHHH
Confidence               34 578888888777899999999999976443          677888888888887 799999999999999999


Q ss_pred             HHHHHHhCCc
Q 030337          154 AAIKVVLQPP  163 (179)
Q Consensus       154 ~l~~~i~~~~  163 (179)
                      .+.+.+....
T Consensus       201 ~l~~~~~~~~  210 (535)
T 3dpu_A          201 SLKSAVLHPD  210 (535)
T ss_dssp             HHHHHHTCTT
T ss_pred             HHHHHHhccc
Confidence            9999887654

>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=99.82  E-value=5e-20  Score=135.93  Aligned_cols=147  Identities=8%  Similarity=0.003  Sum_probs=100.4

Q ss_pred             eeehhhhhCCCCCcccCce-eeceeeEEEECCeEEEEEEEeCCCC------cc----ccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQDYVPTV-FDNFSANVVVDGSTVNLGLWDTAGQ------ED----YNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~-~~~~~~~~~~~~~~~~~~i~D~~G~------~~----~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.|.....|.. ..........++  +.+.||||||+      ++    +.. +..++..++++|+|||+++
T Consensus        44 sLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~-~~~~~~~~d~~i~v~d~~~  120 (228)
T 2qu8_A           44 SFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTT-ITALAHINGVILFIIDISE  120 (228)
T ss_dssp             HHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHH-HHHHHTSSEEEEEEEETTC
T ss_pred             HHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHH-HHHhhccccEEEEEEeccc
Confidence            4677888887753322221 111222333344  78999999999      33    222 2345788999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHH---HHHHHHHHhC--CCeEEEeccCCC
Q 030337           72 KASYENV-AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA---QGEELRKLIG--SPAYIECSSKTQ  145 (179)
Q Consensus        72 ~~s~~~~-~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~--~~~~~e~Sa~~~  145 (179)
                      +.+|+.. ...|+..+....++.|+++|+||+|+.....          +..+   .+..+++..+  . .++++||++|
T Consensus       121 ~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~g  189 (228)
T 2qu8_A          121 QCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDS----------LSIDNKLLIKQILDNVKNPI-KFSSFSTLTG  189 (228)
T ss_dssp             TTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--C----------CCHHHHHHHHHHHHHCCSCE-EEEECCTTTC
T ss_pred             ccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchh----------hHHHHHHHHHHHHHhcCCCc-eEEEEecccC
Confidence            9887522 1356777766556899999999999976442          4433   4566667666  5 8999999999


Q ss_pred             CcHHHHHHHHHHHHhCCc
Q 030337          146 QNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~~~~  163 (179)
                      .||+++|++|++.+.+.+
T Consensus       190 ~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          190 VGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             TTHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHH
Confidence            999999999999886543

>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=99.80  E-value=1.9e-20  Score=133.68  Aligned_cols=142  Identities=16%  Similarity=0.171  Sum_probs=109.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCC-----------CccccccCcccccC-ccEEEEEEeCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAG-----------QEDYNRLRPLSYRG-ADVFILAFSLI   70 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~~-~~~~i~v~d~~   70 (179)
                      +|+.+++.+.|...+.|++... ...+.++    .+.+|||||           ++.+...+..++++ +++++++|++.
T Consensus        16 sli~~l~~~~~~~~~~~~~t~~-~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~   90 (190)
T 2cxx_A           16 TLIYRLTGKKVRRGKRPGVTRK-IIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVV   90 (190)
T ss_dssp             HHHHHHHSCCCSSSSSTTCTTS-CEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEE
T ss_pred             HHHHHHhCcCCccCCCCCccce-eEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEE
Confidence            4788999999998888876422 2333344    589999999           67777777888887 89888889999


Q ss_pred             ChhhHHHHHHHHHHH--------H-hhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCC-----
Q 030337           71 SKASYENVAKKWIPE--------L-RHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP-----  135 (179)
Q Consensus        71 ~~~s~~~~~~~~~~~--------i-~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----  135 (179)
                      |+.++..+...|...        + .... .+.|+++|+||+|+...             ..+.+..+++.++..     
T Consensus        91 d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~~  157 (190)
T 2cxx_A           91 DGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKN-------------VQEVINFLAEKFEVPLSEID  157 (190)
T ss_dssp             ETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSC-------------HHHHHHHHHHHHTCCGGGHH
T ss_pred             cchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCc-------------HHHHHHHHHHHhhhhhhccC
Confidence            899998775666542        1 1111 47999999999999642             145678888888873     


Q ss_pred             -eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          136 -AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       136 -~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                       .++++||++|.|++++|+++++.+.+.
T Consensus       158 ~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          158 KVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             HHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence             379999999999999999999988643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.80  E-value=1.4e-19  Score=125.88  Aligned_cols=136  Identities=20%  Similarity=0.133  Sum_probs=93.1

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccc-------cccCcccccCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY-------NRLRPLSYRGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~~~~i~v~d~~~~~   73 (179)
                      +|+.++..+.+.  ..+.++..+.....+..++.  .+.+|||+|++.+       ...+..++++++++++|+|++++.
T Consensus        16 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~   93 (161)
T 2dyk_A           16 SLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAEL   93 (161)
T ss_dssp             HHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCC
T ss_pred             HHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcc
Confidence            467788888753  33333333444566667774  6889999999873       334556789999999999999875


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      +....  .+...+..  .+.|+++|+||+|+....              +++.+++ ..+...++++||++|.|++++|+
T Consensus        94 ~~~~~--~~~~~~~~--~~~p~ilv~nK~Dl~~~~--------------~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~  154 (161)
T 2dyk_A           94 TQADY--EVAEYLRR--KGKPVILVATKVDDPKHE--------------LYLGPLY-GLGFGDPIPTSSEHARGLEELLE  154 (161)
T ss_dssp             CHHHH--HHHHHHHH--HTCCEEEEEECCCSGGGG--------------GGCGGGG-GGSSCSCEECBTTTTBSHHHHHH
T ss_pred             cHhHH--HHHHHHHh--cCCCEEEEEECcccccch--------------HhHHHHH-hCCCCCeEEEecccCCChHHHHH
Confidence            54331  23333333  368999999999996532              2233444 56665799999999999999999


Q ss_pred             HHHHHH
Q 030337          154 AAIKVV  159 (179)
Q Consensus       154 ~l~~~i  159 (179)
                      ++++.+
T Consensus       155 ~l~~~l  160 (161)
T 2dyk_A          155 AIWERL  160 (161)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            998864

>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=99.79  E-value=1.6e-19  Score=129.62  Aligned_cols=140  Identities=16%  Similarity=0.129  Sum_probs=91.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCC----------CccccccCcccccCc---cEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAG----------QEDYNRLRPLSYRGA---DVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~---~~~i~v~d   68 (179)
                      +|+.+++.+.|.+.+.++.|.... .....++   .+.+|||||          ++.+..++..+++++   +++++|+|
T Consensus        38 sli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d  114 (195)
T 1svi_A           38 SFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVD  114 (195)
T ss_dssp             HHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEE
T ss_pred             HHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEE
Confidence            467888988888888888875443 3333444   589999999          777777777787776   99999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccH--HHHHH-HHHHhCCCeEEEeccCCC
Q 030337           69 LISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT--AQGEE-LRKLIGSPAYIECSSKTQ  145 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~~~~~~e~Sa~~~  145 (179)
                      ++++.++.+.  .+...+..  .+.|+++|+||+|+.....          +..  +++.+ +....+. .++++||++|
T Consensus       115 ~~~~~~~~~~--~~~~~~~~--~~~p~i~v~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  179 (195)
T 1svi_A          115 LRHAPSNDDV--QMYEFLKY--YGIPVIVIATKADKIPKGK----------WDKHAKVVRQTLNIDPED-ELILFSSETK  179 (195)
T ss_dssp             TTSCCCHHHH--HHHHHHHH--TTCCEEEEEECGGGSCGGG----------HHHHHHHHHHHHTCCTTS-EEEECCTTTC
T ss_pred             CCCCCCHHHH--HHHHHHHH--cCCCEEEEEECcccCChHH----------HHHHHHHHHHHHcccCCC-ceEEEEccCC
Confidence            9998888765  23333333  3789999999999976432          221  22222 2222344 8999999999


Q ss_pred             CcHHHHHHHHHHHHh
Q 030337          146 QNVKAVFDAAIKVVL  160 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~  160 (179)
                      .|++++|+++.+.+.
T Consensus       180 ~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          180 KGKDEAWGAIKKMIN  194 (195)
T ss_dssp             TTHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHhc
Confidence            999999999998763

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.79  E-value=1.7e-19  Score=128.68  Aligned_cols=141  Identities=15%  Similarity=0.115  Sum_probs=106.0

Q ss_pred             eeehhhhhCCCCCcccCceee-ceeeEEEECCeEEEEEEEeCCCCccccc------cCccccc--CccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFD-NFSANVVVDGSTVNLGLWDTAGQEDYNR------LRPLSYR--GADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~-~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~~~~i~v~d~~~~~   73 (179)
                      +|+.++..+.+...+.|++.. .....+.+++  +.+++|||+|++.+..      ++..+++  .++++++|+|.++  
T Consensus        22 tL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~--   97 (188)
T 2wjg_A           22 TIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA--   97 (188)
T ss_dssp             HHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG--
T ss_pred             HHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh--
Confidence            467788887776666676653 3345566666  7899999999998753      3455664  5999999999886  


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                       ++.. ..|+..+...  +.|+++|+||+|+.....          +. ..+..+++.+++ .++++||++|.|++++|+
T Consensus        98 -~~~~-~~~~~~~~~~--~~piilv~nK~Dl~~~~~----------~~-~~~~~~~~~~~~-~~~~~Sa~~~~~v~~l~~  161 (188)
T 2wjg_A           98 -LERN-LYLTLQLMEM--GANLLLALNKMDLAKSLG----------IE-IDVDKLEKILGV-KVVPLSAAKKMGIEELKK  161 (188)
T ss_dssp             -HHHH-HHHHHHHHTT--TCCEEEEEECHHHHHHTT----------CC-CCHHHHHHHHTS-CEEECBGGGTBSHHHHHH
T ss_pred             -HHHH-HHHHHHHHhc--CCCEEEEEEhhhcccccc----------ch-HHHHHHHHHhCC-CeEEEEecCCCCHHHHHH
Confidence             4444 4666666553  789999999999965432          22 356778888887 899999999999999999


Q ss_pred             HHHHHHhCCc
Q 030337          154 AAIKVVLQPP  163 (179)
Q Consensus       154 ~l~~~i~~~~  163 (179)
                      ++++.+.+..
T Consensus       162 ~i~~~~~~~~  171 (188)
T 2wjg_A          162 AISIAVKDKK  171 (188)
T ss_dssp             HHHHHHTTC-
T ss_pred             HHHHHHHhcc
Confidence            9999887654

>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=99.78  E-value=7.1e-20  Score=129.61  Aligned_cols=136  Identities=18%  Similarity=0.186  Sum_probs=97.9

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.++....+  ...+.+|..+.+...+.+++.  .+.+|||+|++++....        ..+++++|++++|||++++
T Consensus        19 tLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~   96 (172)
T 2gj8_A           19 SLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT   96 (172)
T ss_dssp             HHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTC
T ss_pred             HHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCC
Confidence            46677777664  334444444555677778874  58899999997643211        1358999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           73 ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      .+++.  ..|+..+.... .++|+++|+||+|+..+..           .      +++..+. .++++||++|.|++++
T Consensus        97 ~s~~~--~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-----------~------~~~~~~~-~~~~~SA~~g~gv~~l  156 (172)
T 2gj8_A           97 DAVDP--AEIWPEFIARLPAKLPITVVRNKADITGETL-----------G------MSEVNGH-ALIRLSARTGEGVDVL  156 (172)
T ss_dssp             CCCSH--HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-----------E------EEEETTE-EEEECCTTTCTTHHHH
T ss_pred             CCHHH--HHHHHHHHHhcccCCCEEEEEECccCCcchh-----------h------hhhccCC-ceEEEeCCCCCCHHHH
Confidence            98874  36777776654 4799999999999954221           0      1112344 7999999999999999


Q ss_pred             HHHHHHHHh
Q 030337          152 FDAAIKVVL  160 (179)
Q Consensus       152 f~~l~~~i~  160 (179)
                      |+++.+.+.
T Consensus       157 ~~~l~~~~~  165 (172)
T 2gj8_A          157 RNHLKQSMG  165 (172)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHhh
Confidence            999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.77  E-value=6.7e-19  Score=126.04  Aligned_cols=143  Identities=14%  Similarity=0.088  Sum_probs=99.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEE-EECCeEEEEEEEeCCC----------CccccccCcccccCc---cEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANV-VVDGSTVNLGLWDTAG----------QEDYNRLRPLSYRGA---DVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~-~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~---~~~i~v~d   68 (179)
                      +|+.+++.+.+ ..+.|+.|....... ..+.   .+.+|||||          ++.+..++..+++++   +++++|+|
T Consensus        38 sli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d  113 (195)
T 3pqc_A           38 SLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVD  113 (195)
T ss_dssp             HHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEE
T ss_pred             HHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEec
Confidence            46778888874 455666664443222 2233   477999999          666777777777665   99999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcH
Q 030337           69 LISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNV  148 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i  148 (179)
                      ++++.+....  .+...+...  +.|+++|+||+|+.....        +....+++..++...+..+++++||++|.|+
T Consensus       114 ~~~~~~~~~~--~~~~~~~~~--~~p~i~v~nK~Dl~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  181 (195)
T 3pqc_A          114 GRIPPQDSDL--MMVEWMKSL--NIPFTIVLTKMDKVKMSE--------RAKKLEEHRKVFSKYGEYTIIPTSSVTGEGI  181 (195)
T ss_dssp             TTSCCCHHHH--HHHHHHHHT--TCCEEEEEECGGGSCGGG--------HHHHHHHHHHHHHSSCCSCEEECCTTTCTTH
T ss_pred             CCCCCCHHHH--HHHHHHHHc--CCCEEEEEEChhcCChHH--------HHHHHHHHHHHHhhcCCCceEEEecCCCCCH
Confidence            9887544432  222233332  689999999999975331        1244456667777656558999999999999


Q ss_pred             HHHHHHHHHHHhC
Q 030337          149 KAVFDAAIKVVLQ  161 (179)
Q Consensus       149 ~~~f~~l~~~i~~  161 (179)
                      +++|+++.+.+.+
T Consensus       182 ~~l~~~l~~~l~~  194 (195)
T 3pqc_A          182 SELLDLISTLLKE  194 (195)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999987753

>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=99.75  E-value=1.7e-17  Score=127.84  Aligned_cols=145  Identities=12%  Similarity=0.053  Sum_probs=108.2

Q ss_pred             eeehhhhhCCCCC--cccCceeeceeeEEEECCeEEEEEEEeCCCCcccc----------ccCcccccCccEEEEEEeCC
Q 030337            3 FIYIICNYSLGKQ--DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYN----------RLRPLSYRGADVFILAFSLI   70 (179)
Q Consensus         3 ~l~~~~~~~~f~~--~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----------~~~~~~~~~~~~~i~v~d~~   70 (179)
                      +|+.+++...+..  ....|...........+ ....+.+|||||+..+.          ..+..+++++|++++|+|++
T Consensus        25 TLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~-~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~  103 (308)
T 3iev_A           25 TLLNNLLGTKVSIISPKAGTTRMRVLGVKNIP-NEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDAT  103 (308)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET-TTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHhCCCccccCCCCCceeeEEEEEEecC-CCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCC
Confidence            4677888887742  22223222222333334 13789999999996654          45566789999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHH
Q 030337           71 SKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVK  149 (179)
Q Consensus        71 ~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~  149 (179)
                      ++.++++. ..|+..+...  +.|+++|+||+|+.....          ...+....+.+.++ ...++++||++|.|++
T Consensus       104 ~~~~~~~~-~~~~~~l~~~--~~pvilV~NK~Dl~~~~~----------~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~  170 (308)
T 3iev_A          104 EGWRPRDE-EIYQNFIKPL--NKPVIVVINKIDKIGPAK----------NVLPLIDEIHKKHPELTEIVPISALKGANLD  170 (308)
T ss_dssp             TBSCHHHH-HHHHHHTGGG--CCCEEEEEECGGGSSSGG----------GGHHHHHHHHHHCTTCCCEEECBTTTTBSHH
T ss_pred             CCCCchhH-HHHHHHHHhc--CCCEEEEEECccCCCCHH----------HHHHHHHHHHHhccCCCeEEEEeCCCCCCHH
Confidence            99988887 6678888774  799999999999973222          55667777888774 4489999999999999


Q ss_pred             HHHHHHHHHHhC
Q 030337          150 AVFDAAIKVVLQ  161 (179)
Q Consensus       150 ~~f~~l~~~i~~  161 (179)
                      ++|+++.+.+..
T Consensus       171 ~L~~~l~~~l~~  182 (308)
T 3iev_A          171 ELVKTILKYLPE  182 (308)
T ss_dssp             HHHHHHHHHSCB
T ss_pred             HHHHHHHHhCcc
Confidence            999999998754

>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=99.74  E-value=1.1e-17  Score=125.91  Aligned_cols=138  Identities=16%  Similarity=0.114  Sum_probs=101.2

Q ss_pred             eeehhhhhCCCCCcccCceeec-eeeEEEECCeEEEEEEEeCCCCccccccC------cccc--cCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDN-FSANVVVDGSTVNLGLWDTAGQEDYNRLR------PLSY--RGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~i~D~~G~~~~~~~~------~~~~--~~~~~~i~v~d~~~~~   73 (179)
                      +|+.+++.+.+.....|.+... ....+..++  +.+.||||||+..+...+      ..++  .++|++++|+|+++.+
T Consensus        20 sL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~   97 (258)
T 3a1s_A           20 SLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPE   97 (258)
T ss_dssp             HHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCH
T ss_pred             HHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchh
Confidence            4667787777754444433221 223333344  789999999999887643      4555  5899999999999976


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      +..    .|...+...  +.|+++|+||+|+.....          +. ..+..+++.+++ +++++||++|.|++++|+
T Consensus        98 ~~~----~~~~~l~~~--~~pvilv~NK~Dl~~~~~----------i~-~~~~~l~~~lg~-~vi~~SA~~g~gi~el~~  159 (258)
T 3a1s_A           98 QSL----YLLLEILEM--EKKVILAMTAIDEAKKTG----------MK-IDRYELQKHLGI-PVVFTSSVTGEGLEELKE  159 (258)
T ss_dssp             HHH----HHHHHHHTT--TCCEEEEEECHHHHHHTT----------CC-BCHHHHHHHHCS-CEEECCTTTCTTHHHHHH
T ss_pred             hHH----HHHHHHHhc--CCCEEEEEECcCCCCccc----------hH-HHHHHHHHHcCC-CEEEEEeeCCcCHHHHHH
Confidence            543    355555544  799999999999975432          33 236788888998 899999999999999999


Q ss_pred             HHHHHHh
Q 030337          154 AAIKVVL  160 (179)
Q Consensus       154 ~l~~~i~  160 (179)
                      ++.+.+.
T Consensus       160 ~i~~~~~  166 (258)
T 3a1s_A          160 KIVEYAQ  166 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9999765

>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=99.71  E-value=7e-18  Score=136.36  Aligned_cols=142  Identities=18%  Similarity=0.126  Sum_probs=102.5

Q ss_pred             eeehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCC----------CccccccCcc-cccCccEEEEEEeC
Q 030337            3 FIYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAG----------QEDYNRLRPL-SYRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~-~~~~~~~~i~v~d~   69 (179)
                      +|+.+++...  +...+.+|..+.+...+..++.  .++||||||          +|+|..++.. +++.+|++++|+|+
T Consensus       210 slin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~  287 (456)
T 4dcu_A          210 SLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDG  287 (456)
T ss_dssp             HHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEET
T ss_pred             HHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeC
Confidence            4667777554  2344555555666677778874  789999999          6777766554 78999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh----CCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI----GSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~e~Sa~~~  145 (179)
                      ++..+.++.  .|...+...  +.|+++|+||+|+.+...          ...+++.+.++..    +..+++++||++|
T Consensus       288 ~~~~~~~~~--~~~~~~~~~--~~~~ilv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g  353 (456)
T 4dcu_A          288 EEGIIEQDK--RIAGYAHEA--GKAVVIVVNKWDAVDKDE----------STMKEFEENIRDHFQFLDYAPILFMSALTK  353 (456)
T ss_dssp             TTCCCHHHH--HHHHHHHHT--TCEEEEEEECGGGSCCCS----------SHHHHHHHHHHHHCGGGTTSCEEECCTTTC
T ss_pred             CCCcCHHHH--HHHHHHHHc--CCCEEEEEEChhcCCCch----------HHHHHHHHHHHHhcccCCCCCEEEEcCCCC
Confidence            987665543  566666553  699999999999976442          5556666655554    2348999999999


Q ss_pred             CcHHHHHHHHHHHHh
Q 030337          146 QNVKAVFDAAIKVVL  160 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~  160 (179)
                      .|++++|+.+.+.+.
T Consensus       354 ~gv~~l~~~i~~~~~  368 (456)
T 4dcu_A          354 KRIHTLMPAIIKASE  368 (456)
T ss_dssp             TTGGGHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999999998764

>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=99.71  E-value=7.6e-18  Score=127.60  Aligned_cols=137  Identities=14%  Similarity=0.116  Sum_probs=98.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccc------cCccccc--CccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNR------LRPLSYR--GADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~~~~i~v~d~~~~~   73 (179)
                      +|+.+++...+.....|  |..+. +...++. .+.+++|||||++.+..      ++..|+.  ++|++++|+|+++.+
T Consensus        18 TL~n~L~g~~~~v~~~p--g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e   94 (272)
T 3b1v_A           18 SLFNLITGHNQRVGNWP--GVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLE   94 (272)
T ss_dssp             HHHHHHHCCCCCCCSSS--CCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHH
T ss_pred             HHHHHHHCCCCcccCCC--CCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchH
Confidence            36677777654322223  22222 3344454 57899999999998763      4455665  699999999999876


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ++.    .|...+.+.  +.|+++|+||+|+.....          +. ..+..+++.+++ +++++||++|.|++++|+
T Consensus        95 ~~~----~~~~~l~~~--~~p~ilv~NK~Dl~~~~~----------~~-~~~~~l~~~lg~-~vi~~SA~~g~gi~el~~  156 (272)
T 3b1v_A           95 RNL----YLTTQLIET--GIPVTIALNMIDVLDGQG----------KK-INVDKLSYHLGV-PVVATSALKQTGVDQVVK  156 (272)
T ss_dssp             HHH----HHHHHHHHT--CSCEEEEEECHHHHHHTT----------CC-CCHHHHHHHHTS-CEEECBTTTTBSHHHHHH
T ss_pred             hHH----HHHHHHHhc--CCCEEEEEEChhhCCcCC----------cH-HHHHHHHHHcCC-CEEEEEccCCCCHHHHHH
Confidence            543    455555543  799999999999965432          33 346778888898 899999999999999999


Q ss_pred             HHHHHHh
Q 030337          154 AAIKVVL  160 (179)
Q Consensus       154 ~l~~~i~  160 (179)
                      ++++.+.
T Consensus       157 ~i~~~~~  163 (272)
T 3b1v_A          157 KAAHTTT  163 (272)
T ss_dssp             HHHHSCT
T ss_pred             HHHHHHh
Confidence            9988653

>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=99.71  E-value=5.5e-17  Score=131.47  Aligned_cols=138  Identities=14%  Similarity=0.073  Sum_probs=82.9

Q ss_pred             eeehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.+.  +..++.+|..+.+...+.+++  +.+.||||+|++.+...+        ..+++++|++++|+|++++
T Consensus       248 SLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~  325 (476)
T 3gee_A          248 TLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTE  325 (476)
T ss_dssp             HHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCCSSCSEEEEEEETTTC
T ss_pred             HHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCC
Confidence            3556666654  344455555566667777888  679999999998766443        3478999999999999999


Q ss_pred             hhHHHH--HHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           73 ASYENV--AKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        73 ~s~~~~--~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      .+++.+  ...|+..+.    +.|+++|+||+|+.....          ..   ...+.+... .+++++||++|.|+++
T Consensus       326 ~s~~~~~~~~~~l~~l~----~~piIvV~NK~Dl~~~~~----------~~---~~~l~~~~~-~~~i~vSAktg~GI~e  387 (476)
T 3gee_A          326 RLDDELTEIRELKAAHP----AAKFLTVANKLDRAANAD----------AL---IRAIADGTG-TEVIGISALNGDGIDT  387 (476)
T ss_dssp             SSGGGHHHHHHHHHHCT----TSEEEEEEECTTSCTTTH----------HH---HHHHHHHHT-SCEEECBTTTTBSHHH
T ss_pred             cchhhhHHHHHHHHhcC----CCCEEEEEECcCCCCccc----------hh---HHHHHhcCC-CceEEEEECCCCCHHH
Confidence            888533  023444433    699999999999976432          21   233444322 4899999999999999


Q ss_pred             HHHHHHHHHh
Q 030337          151 VFDAAIKVVL  160 (179)
Q Consensus       151 ~f~~l~~~i~  160 (179)
                      +|+++.+.+.
T Consensus       388 L~~~i~~~~~  397 (476)
T 3gee_A          388 LKQHMGDLVK  397 (476)
T ss_dssp             HHHHHTHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999886

>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=99.71  E-value=1.2e-18  Score=127.42  Aligned_cols=125  Identities=9%  Similarity=0.110  Sum_probs=90.7

Q ss_pred             eeehhhhhCCCCC---cccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccC----ccEEEEEEeCC-Chhh
Q 030337            3 FIYIICNYSLGKQ---DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRG----ADVFILAFSLI-SKAS   74 (179)
Q Consensus         3 ~l~~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~~~~i~v~d~~-~~~s   74 (179)
                      +|+.++..+.|.+   .+.||++..+        ..+.+.+|||||++.++..+..++++    ++++|+|||++ ++.+
T Consensus        27 sl~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~   98 (218)
T 1nrj_B           27 SLLTLLTTDSVRPTVVSQEPLSAADY--------DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKK   98 (218)
T ss_dssp             HHHHHHHHSSCCCBCCCSSCEEETTG--------GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTC
T ss_pred             HHHHHHhcCCCCCeeeecCceEEEEe--------eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHH
Confidence            4678888888865   4777776544        34679999999999999988888887    89999999999 8899


Q ss_pred             HHHHHHHHHHHHhhc-----CCCCcEEEEEeCCCcccccccccCCCCCcccc------HHHHHHHHHHhCCCeEEEeccC
Q 030337           75 YENVAKKWIPELRHY-----APGVPIILVGTKLDLRDDKQFFIDHPGAVPIT------TAQGEELRKLIGSPAYIECSSK  143 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~-----~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~e~Sa~  143 (179)
                      +..+ ..|+..+...     ..++|+++|+||+|+.....          +.      .+++..++...+. .++++||+
T Consensus        99 ~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----------~~~~~~~l~~~~~~~~~~~~~-~~~~~Sa~  166 (218)
T 1nrj_B           99 LTTT-AEFLVDILSITESSCENGIDILIACNKSELFTARP----------PSKIKDALESEIQKVIERRKK-SLNEVERK  166 (218)
T ss_dssp             CHHH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC----------HHHHHHHHHHHHHHHHHHHHH-HHHC----
T ss_pred             HHHH-HHHHHHHHhcccccccCCCCEEEEEEchHhcccCC----------HHHHHHHHHHHHHHHHHHHhc-cccccccc
Confidence            9888 5666555432     25799999999999976432          33      4556677777776 78999999


Q ss_pred             CCCc
Q 030337          144 TQQN  147 (179)
Q Consensus       144 ~~~~  147 (179)
                      +|.+
T Consensus       167 ~~~~  170 (218)
T 1nrj_B          167 INEE  170 (218)
T ss_dssp             ----
T ss_pred             cccc
Confidence            8765

>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=99.70  E-value=1e-17  Score=125.94  Aligned_cols=136  Identities=13%  Similarity=0.187  Sum_probs=99.6

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccc----------cCcccc--cCccEEEEEEeC
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNR----------LRPLSY--RGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~~~~~i~v~d~   69 (179)
                      +|+.++....+.....|++. +.....+.+++  ..+.||||||+..+.+          ++..++  +++|++|+|+|+
T Consensus        16 TL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~--~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDa   93 (256)
T 3iby_A           16 TLFNALTNANQRVGNWPGVTVEKKTGEFLLGE--HLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDA   93 (256)
T ss_dssp             HHHHHHHTTSEEEEECTTSSSEEEEEEEEETT--EEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEG
T ss_pred             HHHHHHHCCCCCccCCCCceEEEEEEEEEECC--eEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeC
Confidence            35667777766544455544 33345566677  4799999999988764          344566  899999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      ++++++..+    ...+...  +.|+++|+||+|+.....          +.. ....+++.+++ +++++||++|.|++
T Consensus        94 s~~~~~~~l----~~~l~~~--~~pvilv~NK~Dl~~~~~----------~~~-~~~~l~~~lg~-~vi~~SA~~g~gi~  155 (256)
T 3iby_A           94 CHLERHLYL----TSQLFEL--GKPVVVALNMMDIAEHRG----------ISI-DTEKLESLLGC-SVIPIQAHKNIGIP  155 (256)
T ss_dssp             GGHHHHHHH----HHHHTTS--CSCEEEEEECHHHHHHTT----------CEE-CHHHHHHHHCS-CEEECBGGGTBSHH
T ss_pred             CCchhHHHH----HHHHHHc--CCCEEEEEEChhcCCcCC----------cHH-HHHHHHHHcCC-CEEEEECCCCCCHH
Confidence            997766544    3333333  689999999999975432          211 24557788898 89999999999999


Q ss_pred             HHHHHHHHH
Q 030337          150 AVFDAAIKV  158 (179)
Q Consensus       150 ~~f~~l~~~  158 (179)
                      ++|+++.+.
T Consensus       156 el~~~i~~~  164 (256)
T 3iby_A          156 ALQQSLLHC  164 (256)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHHhh
Confidence            999999886

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.70  E-value=1.1e-17  Score=134.64  Aligned_cols=142  Identities=17%  Similarity=0.148  Sum_probs=98.7

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCC----------ccccccCc-ccccCccEEEEEEeC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQ----------EDYNRLRP-LSYRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~-~~~~~~~~~i~v~d~   69 (179)
                      +|+.+++.+.+  ...+.+|..+.+...+..++.  .++||||||+          |.|..++. .+++++|++++|+|+
T Consensus       190 SLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~  267 (436)
T 2hjg_A          190 SLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDG  267 (436)
T ss_dssp             HHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEET
T ss_pred             HHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcC
Confidence            46788888776  344555555666677777874  4899999998          44444333 378899999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHH-HHHHHHh---CCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQG-EELRKLI---GSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~e~Sa~~~  145 (179)
                      +++.++++.  .|...+...  +.|+++|+||+|+.+...          ...++. ..+.+.+   +..+++++||++|
T Consensus       268 ~~~~s~~~~--~~~~~~~~~--~~~iiiv~NK~Dl~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg  333 (436)
T 2hjg_A          268 EEGIIEQDK--RIAGYAHEA--GKAVVIVVNKWDAVDKDE----------STMKEFEENIRDHFQFLDYAPILFMSALTK  333 (436)
T ss_dssp             TTCCCHHHH--HHHHHHHHT--TCEEEEEEECGGGSCCCT----------THHHHHHHHHHHHCGGGTTSCEEECCTTTC
T ss_pred             CcCCcHHHH--HHHHHHHHc--CCcEEEEEECccCCCcch----------HHHHHHHHHHHHhcccCCCCCEEEEecccC
Confidence            999999886  577766654  799999999999976432          333222 2222222   2338999999999


Q ss_pred             CcHHHHHHHHHHHHh
Q 030337          146 QNVKAVFDAAIKVVL  160 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~  160 (179)
                      .|++++|+.+.+.+.
T Consensus       334 ~~v~~l~~~i~~~~~  348 (436)
T 2hjg_A          334 KRIHTLMPAIIKASE  348 (436)
T ss_dssp             TTGGGHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988765

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.70  E-value=2.9e-17  Score=120.28  Aligned_cols=149  Identities=11%  Similarity=-0.038  Sum_probs=93.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEEC-CeEEEEEEEeCCCC----------ccccccCcccccC---ccEEEEEE
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVD-GSTVNLGLWDTAGQ----------EDYNRLRPLSYRG---ADVFILAF   67 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-~~~~~~~i~D~~G~----------~~~~~~~~~~~~~---~~~~i~v~   67 (179)
                      +|+.+++.+.+.....++.|.... ....+. .....+.||||||.          +.+..++..+++.   +|++++|+
T Consensus        44 slin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~  123 (223)
T 4dhe_A           44 TAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMM  123 (223)
T ss_dssp             HHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEE
T ss_pred             HHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEE
Confidence            366777777643333333332211 223333 33467999999994          3445555566655   88899999


Q ss_pred             eCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh------CCCeEEEec
Q 030337           68 SLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI------GSPAYIECS  141 (179)
Q Consensus        68 d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~e~S  141 (179)
                      |++++.+...  ..|+..+...  +.|+++|+||+|+.....        .....+...+.....      ...+++++|
T Consensus       124 d~~~~~~~~~--~~~~~~l~~~--~~p~i~v~nK~Dl~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~S  191 (223)
T 4dhe_A          124 DARRPLTELD--RRMIEWFAPT--GKPIHSLLTKCDKLTRQE--------SINALRATQKSLDAYRDAGYAGKLTVQLFS  191 (223)
T ss_dssp             ETTSCCCHHH--HHHHHHHGGG--CCCEEEEEECGGGSCHHH--------HHHHHHHHHHHHHHHHHHTCCSCEEEEEEB
T ss_pred             eCCCCCCHHH--HHHHHHHHhc--CCCEEEEEeccccCChhh--------HHHHHHHHHHHHHhhhhcccCCCCeEEEee
Confidence            9998655443  3566666653  789999999999965331        000112222333332      334899999


Q ss_pred             cCCCCcHHHHHHHHHHHHhCCc
Q 030337          142 SKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       142 a~~~~~i~~~f~~l~~~i~~~~  163 (179)
                      |++|.|++++|++|.+.+....
T Consensus       192 A~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          192 ALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             TTTTBSHHHHHHHHHHHHC---
T ss_pred             cCCCcCHHHHHHHHHHhcCccC
Confidence            9999999999999999876543

>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=99.69  E-value=9.4e-17  Score=123.25  Aligned_cols=140  Identities=13%  Similarity=0.047  Sum_probs=96.7

Q ss_pred             eeehhhhhCCCCC-ccc-CceeeceeeEEEECCeEEEEEEEeCCCCcc--------ccccCcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGKQ-DYV-PTVFDNFSANVVVDGSTVNLGLWDTAGQED--------YNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~~-~~~-pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++...+.. ... +|........+..++  .++.+|||||...        +......+++++|++++|+|++++
T Consensus        22 TLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~   99 (301)
T 1wf3_A           22 TLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHP   99 (301)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSC
T ss_pred             HHHHHHhCCceeeecCCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCC
Confidence            4678888887742 222 333333333333344  7899999999876        344455678999999999999987


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-hCCCeEEEeccCCCCcHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-IGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      .+..+  ..+.+.+....++.|+++|+||+|+....           .  . ....++. .+...++++||++|.|++++
T Consensus       100 ~~~~~--~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~-----------~--~-~~~~~~~~~~~~~~~~iSA~~g~gv~~l  163 (301)
T 1wf3_A          100 PTPED--ELVARALKPLVGKVPILLVGNKLDAAKYP-----------E--E-AMKAYHELLPEAEPRMLSALDERQVAEL  163 (301)
T ss_dssp             CCHHH--HHHHHHHGGGTTTSCEEEEEECGGGCSSH-----------H--H-HHHHHHHTSTTSEEEECCTTCHHHHHHH
T ss_pred             CChHH--HHHHHHHHhhcCCCCEEEEEECcccCCch-----------H--H-HHHHHHHhcCcCcEEEEeCCCCCCHHHH
Confidence            66553  23446666655579999999999996422           1  0 2222233 34447899999999999999


Q ss_pred             HHHHHHHHh
Q 030337          152 FDAAIKVVL  160 (179)
Q Consensus       152 f~~l~~~i~  160 (179)
                      |+.+.+.+.
T Consensus       164 ~~~l~~~l~  172 (301)
T 1wf3_A          164 KADLLALMP  172 (301)
T ss_dssp             HHHHHTTCC
T ss_pred             HHHHHHhcc
Confidence            999988654

>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=99.67  E-value=1.8e-16  Score=127.56  Aligned_cols=138  Identities=20%  Similarity=0.152  Sum_probs=91.4

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccc---------cccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDY---------NRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+  ..++..+..+.....+.+++.  .+++|||||.+..         ...+..+++++|++++|+|+++
T Consensus        16 tL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~   93 (439)
T 1mky_A           16 TLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKR   93 (439)
T ss_dssp             HHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTT
T ss_pred             HHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence            46778887764  344444444566677888884  5789999998753         3345567999999999999998


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHH-HHHHHHhCCCeEEEeccCCCCcHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQG-EELRKLIGSPAYIECSSKTQQNVKA  150 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~e~Sa~~~~~i~~  150 (179)
                      +.+..+.  .+...+++.  +.|+++|+||+|+...            . ...+ .++. .++...++++||++|.|+.+
T Consensus        94 ~~~~~d~--~i~~~l~~~--~~p~ilv~NK~D~~~~------------~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~  155 (439)
T 1mky_A           94 GITKEDE--SLADFLRKS--TVDTILVANKAENLRE------------F-EREVKPELY-SLGFGEPIPVSAEHNINLDT  155 (439)
T ss_dssp             CCCHHHH--HHHHHHHHH--TCCEEEEEESCCSHHH------------H-HHHTHHHHG-GGSSCSCEECBTTTTBSHHH
T ss_pred             CCCHHHH--HHHHHHHHc--CCCEEEEEeCCCCccc------------c-HHHHHHHHH-hcCCCCEEEEeccCCCCHHH
Confidence            7665432  222223332  6899999999998431            1 1222 3343 45665689999999999999


Q ss_pred             HHHHHHHHHh
Q 030337          151 VFDAAIKVVL  160 (179)
Q Consensus       151 ~f~~l~~~i~  160 (179)
                      +|+++.+.+.
T Consensus       156 L~~~i~~~l~  165 (439)
T 1mky_A          156 MLETIIKKLE  165 (439)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhcc
Confidence            9999999875

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.67  E-value=4.2e-17  Score=130.26  Aligned_cols=140  Identities=15%  Similarity=0.116  Sum_probs=98.1

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcc-------cccCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPL-------SYRGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-------~~~~~~~~i~v~d~~~~~   73 (179)
                      +|+.+++...+.  ..+.+|.-+...+.+.+++.. .+.+|||+|++.+..+...       +++++|++|+|+|++..+
T Consensus        49 TLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~~  127 (423)
T 3qq5_A           49 SFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTP  127 (423)
T ss_dssp             TTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCCH
T ss_pred             HHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCChH
Confidence            356677776662  333333334445666666542 7899999999988766433       788999999999994333


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ..    ..|+..+.+.  +.|+++|+||+|+.....          .  +.+.++++.+++ +++++||++|.|++++|+
T Consensus       128 ~~----~~~l~~l~~~--~~piIvV~NK~Dl~~~~~----------~--~~~~~l~~~~g~-~v~~vSAktg~gI~eL~~  188 (423)
T 3qq5_A          128 YE----DDVVNLFKEM--EIPFVVVVNKIDVLGEKA----------E--ELKGLYESRYEA-KVLLVSALQKKGFDDIGK  188 (423)
T ss_dssp             HH----HHHHHHHHHT--TCCEEEECCCCTTTTCCC----------T--HHHHHSSCCTTC-CCCCCSSCCTTSTTTHHH
T ss_pred             HH----HHHHHHHHhc--CCCEEEEEeCcCCCCccH----------H--HHHHHHHHHcCC-CEEEEECCCCCCHHHHHH
Confidence            32    4566666665  799999999999976542          2  556677777787 899999999999999999


Q ss_pred             HHHHHHhCC
Q 030337          154 AAIKVVLQP  162 (179)
Q Consensus       154 ~l~~~i~~~  162 (179)
                      ++.+.+...
T Consensus       189 ~L~~~l~~~  197 (423)
T 3qq5_A          189 TISEILPGD  197 (423)
T ss_dssp             HHHHHSCCC
T ss_pred             HHHHhhhhh
Confidence            999988543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.67  E-value=8.6e-16  Score=117.97  Aligned_cols=131  Identities=15%  Similarity=0.018  Sum_probs=97.2

Q ss_pred             hhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHH
Q 030337            8 CNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPEL   86 (179)
Q Consensus         8 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i   86 (179)
                      ...|.|...+.|++||.+.....-++..+...     .++++..+.+.+++++|++++|+|+++|. +++.+ ..|+..+
T Consensus        33 ~~~~~~~~~~~~~vGD~V~~~~~~~~~g~I~~-----i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l-~~~l~~~  106 (302)
T 2yv5_A           33 IPRGKVLKKTKIYAGDYVWGEVVDPNTFAIEE-----VEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLL-DNMLVVY  106 (302)
T ss_dssp             EECSSSTTSSCCCBTCEEEEEEEETTEEEEEE-----ECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHH-HHHHHHH
T ss_pred             EEcCCcccCCCCcCceEEEEEEccCCeEEEEe-----eCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHH-HHHHHHH
Confidence            34556654444777776654433333333222     37788899999999999999999999996 88877 8898877


Q ss_pred             hhcCCCCcEEEEEeCCCcccccccccCCCCCcccc-HHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337           87 RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT-TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        87 ~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      ..  .++|+++|+||+|+.++..          +. .++...+++..+. +++++||++|.|+++++..+..
T Consensus       107 ~~--~~~~~ilV~NK~DL~~~~~----------v~~~~~~~~~~~~~g~-~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          107 EY--FKVEPVIVFNKIDLLNEEE----------KKELERWISIYRDAGY-DVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             HH--TTCEEEEEECCGGGCCHHH----------HHHHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHTTT
T ss_pred             Hh--CCCCEEEEEEcccCCCccc----------cHHHHHHHHHHHHCCC-eEEEEECCCCCCHHHHHhhccC
Confidence            65  3799999999999965321          22 3455666777787 8999999999999999987654

>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=99.66  E-value=1.7e-16  Score=120.01  Aligned_cols=141  Identities=17%  Similarity=0.047  Sum_probs=102.9

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccc------cCcccc--cCccEEEEEEeCCChh
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNR------LRPLSY--RGADVFILAFSLISKA   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~~~~i~v~d~~~~~   73 (179)
                      +|+.++....+.....|+++... ...+.+++  ..+.+|||||+..+..      .+..++  .++|++++|+|+++.+
T Consensus        18 TL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~   95 (271)
T 3k53_A           18 TIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLM   95 (271)
T ss_dssp             HHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHH
T ss_pred             HHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcch
Confidence            36677777777655666665333 35566666  4599999999988776      455555  7899999999999864


Q ss_pred             hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           74 SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        74 s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ...    .|...+... ...|+++|+||+|+.....          +.. ....+++.+++ +++++||++|.|+.++|+
T Consensus        96 ~~~----~~~~~~~~~-~~~p~ilv~NK~Dl~~~~~----------~~~-~~~~l~~~lg~-~~~~~Sa~~g~gi~~l~~  158 (271)
T 3k53_A           96 RNL----FLTLELFEM-EVKNIILVLNKFDLLKKKG----------AKI-DIKKMRKELGV-PVIPTNAKKGEGVEELKR  158 (271)
T ss_dssp             HHH----HHHHHHHHT-TCCSEEEEEECHHHHHHHT----------CCC-CHHHHHHHHSS-CEEECBGGGTBTHHHHHH
T ss_pred             hhH----HHHHHHHhc-CCCCEEEEEEChhcCcccc----------cHH-HHHHHHHHcCC-cEEEEEeCCCCCHHHHHH
Confidence            322    333344433 1389999999999865432          222 26778888898 899999999999999999


Q ss_pred             HHHHHHhCC
Q 030337          154 AAIKVVLQP  162 (179)
Q Consensus       154 ~l~~~i~~~  162 (179)
                      .+.+.+...
T Consensus       159 ~i~~~~~~~  167 (271)
T 3k53_A          159 MIALMAEGK  167 (271)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHhcc
Confidence            999987543

>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=99.66  E-value=4.1e-16  Score=126.51  Aligned_cols=136  Identities=16%  Similarity=0.155  Sum_probs=100.8

Q ss_pred             eeehhhhhCC--CCCcccCceeeceeeEEEECCeEEEEEEEeCCCCc-ccccc--------CcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSL--GKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE-DYNRL--------RPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~--f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~~--------~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++...  +..++.+|..+.....+.+++  ..+.||||+|.. .+...        ...+++++|++|+|+|+++
T Consensus       258 SLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~  335 (482)
T 1xzp_A          258 TLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASS  335 (482)
T ss_dssp             HHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTS
T ss_pred             HHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCC
Confidence            4677777775  355666666666777888887  568999999998 65432        2356889999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      +.++++.  .+++.+    .+.|+++|+||+|+...            ++.++...++. .+. +++++||++|.|++++
T Consensus       336 ~~s~~~~--~il~~l----~~~piivV~NK~DL~~~------------~~~~~~~~~~~-~~~-~~i~iSAktg~Gi~eL  395 (482)
T 1xzp_A          336 PLDEEDR--KILERI----KNKRYLVVINKVDVVEK------------INEEEIKNKLG-TDR-HMVKISALKGEGLEKL  395 (482)
T ss_dssp             CCCHHHH--HHHHHH----TTSSEEEEEEECSSCCC------------CCHHHHHHHHT-CST-TEEEEEGGGTCCHHHH
T ss_pred             CCCHHHH--HHHHHh----cCCCEEEEEECcccccc------------cCHHHHHHHhc-CCC-cEEEEECCCCCCHHHH
Confidence            9888765  333443    36899999999999642            23344444332 234 7999999999999999


Q ss_pred             HHHHHHHHh
Q 030337          152 FDAAIKVVL  160 (179)
Q Consensus       152 f~~l~~~i~  160 (179)
                      |++|.+.+.
T Consensus       396 ~~~l~~~~~  404 (482)
T 1xzp_A          396 EESIYRETQ  404 (482)
T ss_dssp             HHHHHHHTH
T ss_pred             HHHHHHHHh
Confidence            999999765

>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=99.66  E-value=2.9e-17  Score=124.55  Aligned_cols=140  Identities=15%  Similarity=0.117  Sum_probs=98.5

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccccC----------ccc--ccCccEEEEEEeC
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNRLR----------PLS--YRGADVFILAFSL   69 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~----------~~~--~~~~~~~i~v~d~   69 (179)
                      +|+.+++...+.....|++. +.....+..++  ..+.+|||||+..+....          ..+  .+++|++|+|+|+
T Consensus        18 TLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~   95 (274)
T 3i8s_A           18 TLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDA   95 (274)
T ss_dssp             HHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEG
T ss_pred             HHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecC
Confidence            46677777776544555443 23334455555  457889999998877432          222  2799999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      ++.++...+    ...+...  +.|+++|+||+|+.....          +. .....+++.+++ +++++||++|.|++
T Consensus        96 ~~~~~~~~~----~~~l~~~--~~p~ivv~NK~Dl~~~~~----------~~-~~~~~l~~~lg~-~~i~~SA~~g~gi~  157 (274)
T 3i8s_A           96 SNLERNLYL----TLQLLEL--GIPCIVALNMLDIAEKQN----------IR-IEIDALSARLGC-PVIPLVSTRGRGIE  157 (274)
T ss_dssp             GGHHHHHHH----HHHHHHH--TCCEEEEEECHHHHHHTT----------EE-ECHHHHHHHHTS-CEEECCCGGGHHHH
T ss_pred             CChHHHHHH----HHHHHhc--CCCEEEEEECccchhhhh----------HH-HHHHHHHHhcCC-CEEEEEcCCCCCHH
Confidence            987765444    3333333  699999999999965432          21 234677888898 89999999999999


Q ss_pred             HHHHHHHHHHhCC
Q 030337          150 AVFDAAIKVVLQP  162 (179)
Q Consensus       150 ~~f~~l~~~i~~~  162 (179)
                      ++|+++.+.+...
T Consensus       158 el~~~i~~~~~~~  170 (274)
T 3i8s_A          158 ALKLAIDRYKANE  170 (274)
T ss_dssp             HHHHHHHTCCCCC
T ss_pred             HHHHHHHHHHhcC
Confidence            9999998876543

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.62  E-value=3.3e-15  Score=117.16  Aligned_cols=112  Identities=19%  Similarity=0.172  Sum_probs=87.3

Q ss_pred             EEEEEEeCCCCcccccc---------CcccccCccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           36 VNLGLWDTAGQEDYNRL---------RPLSYRGADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~---------~~~~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      ..+.+|||+|.......         ...+...+|++++|+|++++.  +++.. ..|+..+....++.|+++|+||+|+
T Consensus       214 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~-~~~~~~i~~~~~~~piilV~NK~Dl  292 (357)
T 2e87_A          214 FRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQ-IHLFEEVHGEFKDLPFLVVINKIDV  292 (357)
T ss_dssp             EEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHH-HHHHHHHHHHTTTSCEEEEECCTTT
T ss_pred             ceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHH-HHHHHHHHHhcCCCCEEEEEECccc
Confidence            67999999998653221         113445799999999999887  67776 6788888776557999999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ....            ..+++..+++..+. +++++||++|.|++++|+++.+.+..
T Consensus       293 ~~~~------------~~~~~~~~~~~~~~-~~~~iSA~~g~gi~~l~~~i~~~l~~  336 (357)
T 2e87_A          293 ADEE------------NIKRLEKFVKEKGL-NPIKISALKGTGIDLVKEEIIKTLRP  336 (357)
T ss_dssp             CCHH------------HHHHHHHHHHHTTC-CCEECBTTTTBTHHHHHHHHHHHHHH
T ss_pred             CChH------------HHHHHHHHHHhcCC-CeEEEeCCCCcCHHHHHHHHHHHHHH
Confidence            6532            22445666667776 89999999999999999999998754

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.60  E-value=3.1e-15  Score=124.07  Aligned_cols=115  Identities=21%  Similarity=0.339  Sum_probs=93.8

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      +++.+.++||||||+++|...+..+++.+|++|+|+|+++..+++.. ..|......   ++|+++|+||+|+....   
T Consensus        67 ~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~-~~~~~~~~~---~ipiIvViNKiDl~~a~---  139 (599)
T 3cb4_D           67 DGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTL-ANCYTAMEM---DLEVVPVLNKIDLPAAD---  139 (599)
T ss_dssp             TSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHH-HHHHHHHHT---TCEEEEEEECTTSTTCC---
T ss_pred             CCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHH-HHHHHHHHC---CCCEEEeeeccCccccc---
Confidence            56679999999999999999888999999999999999998888777 667655432   68999999999996532   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                               ..+...++.+.++..  .++++||++|.|++++|+++++.+..+
T Consensus       140 ---------~~~v~~ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          140 ---------PERVAEEIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             ---------HHHHHHHHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSCCC
T ss_pred             ---------HHHHHHHHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCCCc
Confidence                     223345566666652  489999999999999999999987654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.60  E-value=2.9e-17  Score=134.52  Aligned_cols=144  Identities=15%  Similarity=0.134  Sum_probs=99.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++..+.|...+.|++...+. ..+..++ ...+.||||||++.|..++..+++.+|++|+|+|+++....+.. ..
T Consensus        19 SLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~-e~   96 (537)
T 3izy_P           19 TLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTV-ES   96 (537)
T ss_dssp             HHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHH-HH
T ss_pred             HHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHH-HH
Confidence            467777777776666677653332 3333321 23689999999999999999999999999999999997776665 33


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH---HHHhC-CCeEEEeccCCCCcHHHHHHHHHH
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL---RKLIG-SPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      | ..+...  ++|+++++||+|+.....        ..+. .+...+   +..++ ..+++++||++|.|++++|+++..
T Consensus        97 l-~~~~~~--~vPiIVViNKiDl~~~~~--------~~v~-~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~  164 (537)
T 3izy_P           97 I-QHAKDA--HVPIVLAINKCDKAEADP--------EKVK-KELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIA  164 (537)
T ss_dssp             H-HHHHTT--TCCEEECCBSGGGTTTSC--------CSSS-SHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHH
T ss_pred             H-HHHHHc--CCcEEEEEecccccccch--------HHHH-HHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHH
Confidence            3 333333  689999999999975321        0011 111111   11121 237899999999999999999998


Q ss_pred             HHh
Q 030337          158 VVL  160 (179)
Q Consensus       158 ~i~  160 (179)
                      .+-
T Consensus       165 l~~  167 (537)
T 3izy_P          165 LAE  167 (537)
T ss_dssp             HHT
T ss_pred             hhh
Confidence            764

>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=99.59  E-value=5.3e-15  Score=122.56  Aligned_cols=115  Identities=20%  Similarity=0.299  Sum_probs=93.5

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      ++..+.++||||||+++|...+..+++.+|++|+|+|+++..+++.. ..|.....   .++|+++|+||+|+....   
T Consensus        69 dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~-~~~~~a~~---~~ipiIvviNKiDl~~a~---  141 (600)
T 2ywe_A           69 DGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTV-ANFWKAVE---QDLVIIPVINKIDLPSAD---  141 (600)
T ss_dssp             TSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHH-HHHHHHHH---TTCEEEEEEECTTSTTCC---
T ss_pred             CCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHH-HHHHHHHH---CCCCEEEEEeccCccccC---
Confidence            46679999999999999998888899999999999999999888877 66765543   268999999999996532   


Q ss_pred             cCCCCCccccHHHHHHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          112 IDHPGAVPITTAQGEELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                               ......++.+.++..  .++++||++|.|++++|+++++.+..+
T Consensus       142 ---------~~~v~~el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          142 ---------VDRVKKQIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             ---------HHHHHHHHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             ---------HHHHHHHHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcccc
Confidence                     223345566666652  489999999999999999999987654

>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=99.59  E-value=1.3e-14  Score=115.78  Aligned_cols=114  Identities=22%  Similarity=0.192  Sum_probs=78.1

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC----hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS----KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~----~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      ...+.||||||+++|...+...+..+|++|+|+|+++    +.+++.+ ..    +... ...|+++++||+|+..... 
T Consensus        80 ~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l-~~----~~~l-~~~~iivv~NK~Dl~~~~~-  152 (408)
T 1s0u_A           80 LRRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHL-MA----LEIL-GIDKIIIVQNKIDLVDEKQ-  152 (408)
T ss_dssp             EEEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHH-HH----HHHT-TCCCEEEEEECTTSSCTTT-
T ss_pred             ccEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHH-HH----HHHc-CCCeEEEEEEccCCCCHHH-
Confidence            3789999999999998877778889999999999995    4455544 22    2222 2358999999999975331 


Q ss_pred             ccCCCCCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          111 FIDHPGAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                             .....+++.++++..  ...+++++||++|.|+++++++|.+.+..+
T Consensus       153 -------~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~~  199 (408)
T 1s0u_A          153 -------AEENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPTP  199 (408)
T ss_dssp             -------TTTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCCC
T ss_pred             -------HHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence                   112345556666542  123799999999999999999999877543

>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=99.58  E-value=7e-15  Score=117.10  Aligned_cols=118  Identities=14%  Similarity=0.096  Sum_probs=86.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      ...+.||||||+++|...+..++..+|++++|+|+++..++... ..|+..+.... ..|+++|+||+|+.+...     
T Consensus        74 ~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt-~~~~~~~~~~~-~~~iivviNK~Dl~~~~~-----  146 (403)
T 3sjy_A           74 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQT-REHFVALGIIG-VKNLIIVQNKVDVVSKEE-----  146 (403)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHH-HHHHHHHHHHT-CCCEEEEEECGGGSCHHH-----
T ss_pred             cceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHH-HHHHHHHHHcC-CCCEEEEEECccccchHH-----
Confidence            37899999999999999888899999999999999998766655 45555555442 358999999999975331     


Q ss_pred             CCCccccHHHHHHHHHHhC--CCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          115 PGAVPITTAQGEELRKLIG--SPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                         .....++..++.+..+  ..+++++||++|.|++++++.|.+.+..+
T Consensus       147 ---~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          147 ---ALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             ---HHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             ---HHHHHHHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCCC
Confidence               0011122222332221  23799999999999999999999877543

>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=99.58  E-value=1.6e-15  Score=118.14  Aligned_cols=113  Identities=16%  Similarity=0.232  Sum_probs=89.2

Q ss_pred             EEEEEEeCCCCc----cccccCccccc---CccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCC
Q 030337           36 VNLGLWDTAGQE----DYNRLRPLSYR---GADVFILAFSLIS---KASYENVAKKWIPELRHYA---PGVPIILVGTKL  102 (179)
Q Consensus        36 ~~~~i~D~~G~~----~~~~~~~~~~~---~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~  102 (179)
                      ..+.||||||..    .+..+...+++   .++++|+|+|+++   +.+++++ ..|...+..+.   .+.|+++|+||+
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~-~~~~~eL~~~~~~l~~~p~ilV~NK~  284 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDY-LTINQELSEYNLRLTERPQIIVANKM  284 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHH-HHHHHHHHHSCSSTTTSCBCBEEECT
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHH-HHHHHHHHHhhhhhcCCCEEEEEECc
Confidence            468999999953    34445555655   4999999999999   7889888 78888888765   379999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHHhCC-CeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-PAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                      |+...              .+....+++.++. ..++++||+++.|+++++++|.+.+....
T Consensus       285 Dl~~~--------------~e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~~~  332 (342)
T 1lnz_A          285 DMPEA--------------AENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLENTP  332 (342)
T ss_dssp             TSTTH--------------HHHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             cCCCC--------------HHHHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhhCc
Confidence            99542              1345666676652 37899999999999999999999887544

>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=99.58  E-value=3.1e-15  Score=120.82  Aligned_cols=137  Identities=20%  Similarity=0.215  Sum_probs=90.2

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++...+  ..++.+|..+.....+.+++  +.+.||||+|...+...+        ..+++++|++++|+|++++
T Consensus       239 SLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~  316 (462)
T 3geh_A          239 SLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATG  316 (462)
T ss_dssp             HHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CCCCSCSEEEEEEETTTC
T ss_pred             HHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCC
Confidence            35666666543  44444444455567778888  567999999986654332        3468899999999999998


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+...  ..|+..+.    ..|+++|+||+|+.....          ..  ....+.  .+ .+++++||++|.|++++|
T Consensus       317 ~~~~~--~~i~~~l~----~~piivV~NK~Dl~~~~~----------~~--~~~~~~--~~-~~~i~iSAktg~Gi~eL~  375 (462)
T 3geh_A          317 WTTGD--QEIYEQVK----HRPLILVMNKIDLVEKQL----------IT--SLEYPE--NI-TQIVHTAAAQKQGIDSLE  375 (462)
T ss_dssp             SCHHH--HHHHHHHT----TSCEEEEEECTTSSCGGG----------ST--TCCCCT--TC-CCEEEEBTTTTBSHHHHH
T ss_pred             CCHHH--HHHHHhcc----CCcEEEEEECCCCCcchh----------hH--HHHHhc--cC-CcEEEEECCCCCCHHHHH
Confidence            87766  35666654    479999999999976442          11  111111  23 379999999999999999


Q ss_pred             HHHHHHHhCC
Q 030337          153 DAAIKVVLQP  162 (179)
Q Consensus       153 ~~l~~~i~~~  162 (179)
                      +++.+.+...
T Consensus       376 ~~i~~~~~~~  385 (462)
T 3geh_A          376 TAILEIVQTG  385 (462)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHHhcc
Confidence            9999988654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.54  E-value=3.6e-16  Score=125.73  Aligned_cols=136  Identities=15%  Similarity=0.085  Sum_probs=85.3

Q ss_pred             eehhhhhCCCCCcccCcee---eceeeEEEECCeEEEEEEEeCCCCc--------cccccCcccccCccEEEEEEeCCCh
Q 030337            4 IYIICNYSLGKQDYVPTVF---DNFSANVVVDGSTVNLGLWDTAGQE--------DYNRLRPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~---~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~~~~i~v~d~~~~   72 (179)
                      |+.+++.+.+. ...++.|   +.....+.+++  ..+.||||||++        .+...+..+++++|++|+|+|++++
T Consensus        19 L~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~   95 (436)
T 2hjg_A           19 IFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREG   95 (436)
T ss_dssp             HHHHHEEEECC------------CEEEECTTCS--SCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTC
T ss_pred             HHHHHhCCCce-eecCCCCCccceEEEEEEECC--ceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCC
Confidence            56677666553 1223333   22223333334  579999999986        5666677789999999999999998


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .++.+.  .+...+++  .+.|+++|+||+|+.....              .+.++. .++...++++||++|.|+.+++
T Consensus        96 ~~~~d~--~~~~~l~~--~~~pvilv~NK~D~~~~~~--------------~~~~~~-~lg~~~~~~iSA~~g~gv~~L~  156 (436)
T 2hjg_A           96 VTAADE--EVAKILYR--TKKPVVLAVNKLDNTEMRA--------------NIYDFY-SLGFGEPYPISGTHGLGLGDLL  156 (436)
T ss_dssp             SCHHHH--HHHHHHTT--CCSCEEEEEECCCC-------------------CCCSSG-GGSSCCCEECBTTTTBTHHHHH
T ss_pred             CCHHHH--HHHHHHHH--cCCCEEEEEECccCccchh--------------hHHHHH-HcCCCCeEEEeCcCCCChHHHH
Confidence            777653  34444544  3789999999999864321              011122 3455578999999999999999


Q ss_pred             HHHHHHHhC
Q 030337          153 DAAIKVVLQ  161 (179)
Q Consensus       153 ~~l~~~i~~  161 (179)
                      +++.+.+..
T Consensus       157 ~~i~~~l~~  165 (436)
T 2hjg_A          157 DAVAEHFKN  165 (436)
T ss_dssp             HHHHHTGGG
T ss_pred             HHHHHhcCc
Confidence            999988753

>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=99.54  E-value=7.5e-16  Score=121.04  Aligned_cols=143  Identities=10%  Similarity=0.058  Sum_probs=75.4

Q ss_pred             eehh-hhhCCCCCccc--------Cceeece-eeEEEECCeEEEEEEEeCCCC-------ccccccCc-------ccccC
Q 030337            4 IYII-CNYSLGKQDYV--------PTVFDNF-SANVVVDGSTVNLGLWDTAGQ-------EDYNRLRP-------LSYRG   59 (179)
Q Consensus         4 l~~~-~~~~~f~~~~~--------pt~~~~~-~~~~~~~~~~~~~~i~D~~G~-------~~~~~~~~-------~~~~~   59 (179)
                      |+.+ +..+.|...+.        ||++..+ ...+..++..+.+++|||+|.       +.+..++.       .|+++
T Consensus        53 Lln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~  132 (361)
T 2qag_A           53 LINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHD  132 (361)
T ss_dssp             HHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHH
Confidence            4455 44556665554        5665333 244445677789999999999       77777765       55555


Q ss_pred             ccEE-----------EEEEeCCC-hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccH--HHH
Q 030337           60 ADVF-----------ILAFSLIS-KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT--AQG  125 (179)
Q Consensus        60 ~~~~-----------i~v~d~~~-~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~--~~~  125 (179)
                      ++++           +++|++++ ..++..+...|+..+.   ..+|+++|+||+|+.....          +..  +.+
T Consensus       133 ~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l~---~~~piIlV~NK~Dl~~~~e----------v~~~k~~i  199 (361)
T 2qag_A          133 ESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH---NKVNIVPVIAKADTLTLKE----------RERLKKRI  199 (361)
T ss_dssp             HTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHTC---S-SCEEEEEECCSSSCHHH----------HHHHHHHH
T ss_pred             hhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHhc---cCCCEEEEEECCCCCCHHH----------HHHHHHHH
Confidence            4433           46666665 4566655335555553   4799999999999975432          333  466


Q ss_pred             HHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          126 EELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       126 ~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ..+++..++ +++++||+++.+ ++.|.++.+.+..
T Consensus       200 ~~~~~~~~i-~~~~~Sa~~~~~-~e~~~~l~~~i~~  233 (361)
T 2qag_A          200 LDEIEEHNI-KIYHLPDAESDE-DEDFKEQTRLLKA  233 (361)
T ss_dssp             HHHTTCC-C-CSCCCC----------CHHHHHHHHH
T ss_pred             HHHHHHCCC-CEEeCCCcCCCc-chhHHHHHHHHHh
Confidence            677777787 899999999999 8888888887754

>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=99.53  E-value=1.5e-14  Score=117.54  Aligned_cols=115  Identities=20%  Similarity=0.214  Sum_probs=85.7

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +.+++  ..+.||||||+++|...+..++..+|++|+|+|+++   +.+.+.+     ..+...  ++|+++|+||+|+.
T Consensus        68 ~~~~~--~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-----~~~~~~--~ip~IvviNK~Dl~  138 (482)
T 1wb1_A           68 FKLEN--YRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHM-----LILDHF--NIPIIVVITKSDNA  138 (482)
T ss_dssp             EEETT--EEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHH-----HHHHHT--TCCBCEEEECTTSS
T ss_pred             EEECC--EEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHH-----HHHHHc--CCCEEEEEECCCcc
Confidence            44455  689999999999998888889999999999999998   4555544     122222  68889999999997


Q ss_pred             cccccccCCCCCccccHHHHHHHHHHh-C--CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          106 DDKQFFIDHPGAVPITTAQGEELRKLI-G--SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +...        .....++...+++.. +  ..+++++||++|.|+++++++|.+.+-
T Consensus       139 ~~~~--------~~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          139 GTEE--------IKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CHHH--------HHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cchh--------HHHHHHHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            5321        012234455555544 2  237999999999999999999999764

>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=99.53  E-value=3.7e-14  Score=113.15  Aligned_cols=114  Identities=18%  Similarity=0.145  Sum_probs=81.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh----hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK----ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF  110 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~----~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~  110 (179)
                      ...+.||||||+++|.......+..+|++|+|+|+++.    .+.+.+ ..    +... ...|+++|+||+|+..... 
T Consensus        82 ~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l-~~----~~~~-~~~~iivviNK~Dl~~~~~-  154 (410)
T 1kk1_A           82 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHL-MA----LQII-GQKNIIIAQNKIELVDKEK-  154 (410)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHH-HH----HHHH-TCCCEEEEEECGGGSCHHH-
T ss_pred             ccEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHH-HH----HHHc-CCCcEEEEEECccCCCHHH-
Confidence            37899999999999887777778889999999999954    455544 22    2222 2358999999999975321 


Q ss_pred             ccCCCCCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          111 FIDHPGAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                             .....++...+++..  ...+++++||++|.|+++++++|.+.+..+
T Consensus       155 -------~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~p  201 (410)
T 1kk1_A          155 -------ALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPTP  201 (410)
T ss_dssp             -------HHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             -------HHHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence                   001223444454431  223799999999999999999999877543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.51  E-value=7e-15  Score=105.12  Aligned_cols=97  Identities=9%  Similarity=0.132  Sum_probs=69.9

Q ss_pred             eeehhhhhCCCCC---cccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccC----ccEEEEEEeCC-Chhh
Q 030337            3 FIYIICNYSLGKQ---DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRG----ADVFILAFSLI-SKAS   74 (179)
Q Consensus         3 ~l~~~~~~~~f~~---~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~~~~i~v~d~~-~~~s   74 (179)
                      +|+.++..+.|..   .+.|+++..+        ..+.+.+|||||++.+...+..++.+    ++++|+|||++ ++.+
T Consensus        63 sll~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~  134 (193)
T 2ged_A           63 SLLTLLTTDSVRPTVVSQEPLSAADY--------DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKK  134 (193)
T ss_dssp             HHHHHHHHSSCC------------CC--------CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHH
T ss_pred             HHHHHHhcCCCCcccccCCCceeeee--------cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchh
Confidence            4677888887755   3444444222        34679999999999998888888876    89999999999 8999


Q ss_pred             HHHHHHHHHHHHhhc-----CCCCcEEEEEeCCCccccc
Q 030337           75 YENVAKKWIPELRHY-----APGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~-----~~~~piilv~nK~D~~~~~  108 (179)
                      +..+ ..|+..+...     .++.|+++|+||+|+....
T Consensus       135 ~~~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          135 LTTT-AEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             HHHH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             HHHH-HHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence            9988 5666555432     2479999999999997643

>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=99.51  E-value=5e-14  Score=105.65  Aligned_cols=146  Identities=15%  Similarity=0.062  Sum_probs=91.5

Q ss_pred             eeehhhhhCC-CCCcccCc-e-eeceeeEEEECCeEEEEEEEeCCCCccccccCc-----------ccccCccEEEEEEe
Q 030337            3 FIYIICNYSL-GKQDYVPT-V-FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRP-----------LSYRGADVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~-f~~~~~pt-~-~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-----------~~~~~~~~~i~v~d   68 (179)
                      +|+.+++... |...+.|+ + .......+.+++  ..+.||||||+..+.....           .+++++|++|+|+|
T Consensus        37 tl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d  114 (260)
T 2xtp_A           37 AAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQ  114 (260)
T ss_dssp             HHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEE
T ss_pred             HHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEe
Confidence            3567777776 66666665 2 233334555666  5799999999876543322           26789999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEe-CCCcccccccccCCCCCccccH-------HHHHHHHHHhCCCe--E-
Q 030337           69 LISKASYENVAKKWIPELRHYAPGVPIILVGT-KLDLRDDKQFFIDHPGAVPITT-------AQGEELRKLIGSPA--Y-  137 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~~~~piilv~n-K~D~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~--~-  137 (179)
                      +++..........|+..+.......|+++|.| |+|+....           +..       ..+..+++..+...  + 
T Consensus       115 ~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~-----------~~~~i~~~~~~~~~~~~~~~~~~~~~~~  183 (260)
T 2xtp_A          115 LGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGS-----------LMDYMHDSDNKALSKLVAACGGRICAFN  183 (260)
T ss_dssp             TTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCC-----------HHHHHHHCCCHHHHHHHHHTTTCEEECC
T ss_pred             CCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCcc-----------HHHHHHhcchHHHHHHHHHhCCeEEEec
Confidence            99733322111233333211111345555555 99996421           222       33455666665411  2 


Q ss_pred             -EEeccCCCCcHHHHHHHHHHHHhC
Q 030337          138 -IECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       138 -~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                       +++||++|.|++++|+++.+.+..
T Consensus       184 ~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          184 NRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccccHHHHHHHHHHHHHHHHh
Confidence             789999999999999999998754

>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=99.51  E-value=1.2e-13  Score=111.01  Aligned_cols=141  Identities=18%  Similarity=0.152  Sum_probs=89.2

Q ss_pred             eehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC------------cccccCccEEEEEEeC
Q 030337            4 IYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR------------PLSYRGADVFILAFSL   69 (179)
Q Consensus         4 l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~------------~~~~~~~~~~i~v~d~   69 (179)
                      |+.+++...+  ..++..|..+.....+.+++.  .+.+|||+|..+.....            ..+++.++++++|+|+
T Consensus       196 Lln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~  273 (439)
T 1mky_A          196 LFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDA  273 (439)
T ss_dssp             HHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEET
T ss_pred             HHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeC
Confidence            5666666654  334444444455567778885  57899999985443221            1356789999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH-HHHHH---hCCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE-ELRKL---IGSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~e~Sa~~~  145 (179)
                      ++..+.++.  .+...+...  +.|+++|+||+|+.....          ...++.. .+.+.   .+..+++++||++|
T Consensus       274 ~~~~~~~~~--~i~~~l~~~--~~~~ilv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g  339 (439)
T 1mky_A          274 TQGITRQDQ--RMAGLMERR--GRASVVVFNKWDLVVHRE----------KRYDEFTKLFREKLYFIDYSPLIFTSADKG  339 (439)
T ss_dssp             TTCCCHHHH--HHHHHHHHT--TCEEEEEEECGGGSTTGG----------GCHHHHHHHHHHHCGGGTTSCEEECBTTTT
T ss_pred             CCCCCHHHH--HHHHHHHHc--CCCEEEEEECccCCCchh----------hHHHHHHHHHHHHhccCCCCcEEEEECCCC
Confidence            988777654  344444433  689999999999975332          3333222 22222   22347999999999


Q ss_pred             CcHHHHHHHHHHHHh
Q 030337          146 QNVKAVFDAAIKVVL  160 (179)
Q Consensus       146 ~~i~~~f~~l~~~i~  160 (179)
                      .|++++|+.+.+.+.
T Consensus       340 ~gv~~l~~~i~~~~~  354 (439)
T 1mky_A          340 WNIDRMIDAMNLAYA  354 (439)
T ss_dssp             BSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988653

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.50  E-value=5.2e-15  Score=106.69  Aligned_cols=106  Identities=8%  Similarity=-0.042  Sum_probs=69.3

Q ss_pred             CCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH---HHHHhhcC--CCCcEEEEEeCC-CcccccccccCCCC
Q 030337           43 TAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW---IPELRHYA--PGVPIILVGTKL-DLRDDKQFFIDHPG  116 (179)
Q Consensus        43 ~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~---~~~i~~~~--~~~piilv~nK~-D~~~~~~~~~~~~~  116 (179)
                      .+||+.++++|..||.++|++|||+|.+|.+.++ ...++   ...+....  .++|++|++||. |++..         
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A---------  178 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR---------  178 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB---------
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC---------
Confidence            4589999999999999999999999999986544 32333   33343332  579999999995 67542         


Q ss_pred             CccccHHHHHHHHHH---hCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          117 AVPITTAQGEELRKL---IGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       117 ~~~~~~~~~~~~~~~---~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                         .+..+..+....   ..-+.++.|||++|.|+.+.++||++.+..
T Consensus       179 ---ms~~EI~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          179 ---MPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             ---CCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             ---CCHHHHHHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence               343333322111   122357889999999999999999987754

>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=99.50  E-value=8.5e-15  Score=119.11  Aligned_cols=109  Identities=17%  Similarity=0.101  Sum_probs=72.8

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHH-----HHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENV-----AKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-----~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      ++...+.+.||||||+++|...+..+++.+|++|+|+|+++..++..+     .......+.. ....|+++|+||+|+.
T Consensus       106 ~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~-~~~~~iIvviNK~Dl~  184 (483)
T 3p26_A          106 FSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMDNV  184 (483)
T ss_dssp             EECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH-TTCCCEEEEEECGGGG
T ss_pred             EecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH-cCCCcEEEEEECcCcc
Confidence            444557899999999999999888999999999999999997543221     0112222222 2235799999999997


Q ss_pred             cccccccCCCCCccccH----HHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          106 DDKQFFIDHPGAVPITT----AQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       106 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      +...          ...    ++...+.+..+.    .+++++||++|.|+.+
T Consensus       185 ~~~~----------~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          185 DWSQ----------QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             TTCH----------HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             cchH----------HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            5321          222    233344444443    3789999999999975

>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=99.49  E-value=7.2e-16  Score=125.31  Aligned_cols=140  Identities=14%  Similarity=0.205  Sum_probs=88.5

Q ss_pred             eehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCCh---hhHHHHH
Q 030337            4 IYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK---ASYENVA   79 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~---~s~~~~~   79 (179)
                      |+.++..+.+...+.+.+.... ...+..++  ..+.+|||||++.|..++...+..+|++|+|+|+++.   .+.+.+ 
T Consensus        20 Ll~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l-   96 (501)
T 1zo1_I           20 LLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAI-   96 (501)
T ss_dssp             HHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHH-
T ss_pred             HHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHH-
Confidence            4556666555544433332111 12222344  4689999999999999999999999999999999984   444433 


Q ss_pred             HHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           80 KKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        80 ~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                          ..+..  .++|+++++||+|+...+...    -.....  +...+++.++ ..+++++||++|.|++++|+++...
T Consensus        97 ----~~~~~--~~vPiIVviNKiDl~~~~~~~----v~~~l~--~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I           97 ----QHAKA--AQVPVVVAVNKIDKPEADPDR----VKNELS--QYGILPEEWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             ----HHHHH--TTCCEEEEEECSSSSTTCCCC----TTCCCC--CCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             ----HHHHh--cCceEEEEEEeccccccCHHH----HHHHHH--HhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence                22222  268999999999997532100    000000  0000111222 2389999999999999999998754

>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=99.49  E-value=2.3e-13  Score=104.42  Aligned_cols=110  Identities=18%  Similarity=0.132  Sum_probs=80.7

Q ss_pred             EEEEEEeCCCCc---------cccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           36 VNLGLWDTAGQE---------DYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        36 ~~~~i~D~~G~~---------~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..+.+|||||..         .+......+++.+|++++|+|.++ -+-..  ..+...+..  .+.|+++++||+|+..
T Consensus        56 ~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~-~~~~~--~~i~~~l~~--~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           56 YQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR-WTPDD--EMVLNKLRE--GKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             EEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC-CCHHH--HHHHHHHHS--SSSCEEEEEESTTTCC
T ss_pred             eeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC-CCHHH--HHHHHHHHh--cCCCEEEEEECcccCc
Confidence            679999999997         345566788999999999999987 32222  222333332  3689999999999965


Q ss_pred             ccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          107 DKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...          ...+....+.+.++...++++||++|.|++++++.+...+.
T Consensus       131 ~~~----------~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~  174 (301)
T 1ega_A          131 EKA----------DLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLP  174 (301)
T ss_dssp             CHH----------HHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCC
T ss_pred             cHH----------HHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCC
Confidence            211          23344555666667657999999999999999999998654

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.48  E-value=1.7e-13  Score=112.31  Aligned_cols=68  Identities=18%  Similarity=0.200  Sum_probs=57.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      .+.++||||||+++|...+..+++.+|++|+|+|+++..+.+.. ..| ..+...  ++|+++|+||+|+..
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~-~~~-~~~~~~--~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           81 DYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTI-KLM-EVCRLR--HTPIMTFINKMDRDT  148 (528)
T ss_dssp             TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHH-HHH-HHHHTT--TCCEEEEEECTTSCC
T ss_pred             CEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHH-HHHHHc--CCCEEEEEeCCCCcc
Confidence            37899999999999999999999999999999999998887776 444 344433  689999999999964

>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=99.48  E-value=7.6e-13  Score=109.81  Aligned_cols=117  Identities=18%  Similarity=0.190  Sum_probs=79.8

Q ss_pred             EEEEEeCCCCccccccCcccccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           37 NLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      .++||||||++.|..++..+++.+|++|+|+|+++   +.+++.+ .    .+..  .++|+++++||+|+.........
T Consensus        71 ~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l-~----~l~~--~~vPiIVViNKiDl~~~~~~~~~  143 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEAL-N----ILRM--YRTPFVVAANKIDRIHGWRVHEG  143 (594)
T ss_dssp             EEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHH-H----HHHH--TTCCEEEEEECGGGSTTCCCCTT
T ss_pred             CEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHH-H----HHHH--cCCeEEEEecccccccccccccC
Confidence            59999999999999999999999999999999999   6677655 2    2222  27899999999999753210000


Q ss_pred             -------CCCCccccH---H---HHHHHHHHhC--------------CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          114 -------HPGAVPITT---A---QGEELRKLIG--------------SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       114 -------~~~~~~~~~---~---~~~~~~~~~~--------------~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                             ......+..   +   +........+              ..+++.+||++|.|++++++++...+.
T Consensus       144 ~~~~e~sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          144 RPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             CCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CchHHHHHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence                   000000000   0   0111111222              126899999999999999999988663

>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=99.47  E-value=3.9e-13  Score=105.57  Aligned_cols=145  Identities=17%  Similarity=0.125  Sum_probs=92.7

Q ss_pred             eehhhhhCCCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCc---------cccccCcccccCccEEEEEEeCCChh
Q 030337            4 IYIICNYSLGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQE---------DYNRLRPLSYRGADVFILAFSLISKA   73 (179)
Q Consensus         4 l~~~~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~~~~i~v~d~~~~~   73 (179)
                      |+.++....+. .++..+..+.....+.+++  ..+.+|||+|.-         .|...+ ..+..+|++++|+|++++.
T Consensus       195 Lln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl-~~~~~aD~il~VvD~s~~~  271 (364)
T 2qtf_A          195 LFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTL-SEAKYSDALILVIDSTFSE  271 (364)
T ss_dssp             HHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHH-HGGGGSSEEEEEEETTSCH
T ss_pred             HHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHH-HHHHhCCEEEEEEECCCCc
Confidence            55666665552 2222222234456677788  467999999962         233322 2578999999999999887


Q ss_pred             --hHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh-C-CCeEEEeccCCCCcH
Q 030337           74 --SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI-G-SPAYIECSSKTQQNV  148 (179)
Q Consensus        74 --s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~e~Sa~~~~~i  148 (179)
                        ..+.+ ..|...+.... .+.|+++|+||+|+.....         ......+..++..+ . .+.++++||+++.|+
T Consensus       272 ~~~~~~~-~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~---------~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi  341 (364)
T 2qtf_A          272 NLLIETL-QSSFEILREIGVSGKPILVTLNKIDKINGDL---------YKKLDLVEKLSKELYSPIFDVIPISALKRTNL  341 (364)
T ss_dssp             HHHHHHH-HHHHHHHHHHTCCSCCEEEEEECGGGCCSCH---------HHHHHHHHHHHHHHCSCEEEEEECBTTTTBSH
T ss_pred             chHHHHH-HHHHHHHHHhCcCCCCEEEEEECCCCCCchH---------HHHHHHHHHHHHHhcCCCCcEEEEECCCCcCH
Confidence              55555 56666666544 5789999999999964210         01112333344555 2 126789999999999


Q ss_pred             HHHHHHHHHHHhC
Q 030337          149 KAVFDAAIKVVLQ  161 (179)
Q Consensus       149 ~~~f~~l~~~i~~  161 (179)
                      +++++++.+.+..
T Consensus       342 ~~L~~~I~~~l~~  354 (364)
T 2qtf_A          342 ELLRDKIYQLATQ  354 (364)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999987654

>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=99.46  E-value=7.1e-14  Score=111.34  Aligned_cols=121  Identities=20%  Similarity=0.185  Sum_probs=87.7

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~  107 (179)
                      ..++.....+.||||||+++|...+..+++.+|++|+|+|+++....+..  .|+..+...  ++| +++++||+|+..+
T Consensus        68 ~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~--~~l~~~~~~--~ip~iivviNK~Dl~~~  143 (405)
T 2c78_A           68 VEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTR--EHILLARQV--GVPYIVVFMNKVDMVDD  143 (405)
T ss_dssp             EEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHH--HHHHHHHHT--TCCCEEEEEECGGGCCC
T ss_pred             eEeccCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHH--HHHHHHHHc--CCCEEEEEEECccccCc
Confidence            33444446789999999999988888889999999999999987655543  455555544  678 8999999999742


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCc------------------HHHHHHHHHHHHh
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQN------------------VKAVFDAAIKVVL  160 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~------------------i~~~f~~l~~~i~  160 (179)
                      ..       ......++...+++.++.    .+++++||++|.|                  +.++++.+.+.+-
T Consensus       144 ~~-------~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          144 PE-------LLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HH-------HHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             HH-------HHHHHHHHHHHHHHHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            11       000122356667777663    4799999999987                  7777777776554

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.44  E-value=4.7e-13  Score=107.64  Aligned_cols=112  Identities=18%  Similarity=0.176  Sum_probs=75.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhh---HH---HHHHHHHHHHhhcCCCCc-EEEEEeCCCcccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS---YE---NVAKKWIPELRHYAPGVP-IILVGTKLDLRDD  107 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s---~~---~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~  107 (179)
                      ...+.||||||+++|...+..+++.+|++|+|+|+++...   |+   .. ...+..+...  ++| +++|+||+|+...
T Consensus        94 ~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt-~e~l~~~~~~--~v~~iIvviNK~Dl~~~  170 (439)
T 3j2k_7           94 KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQT-REHAMLAKTA--GVKHLIVLINKMDDPTV  170 (439)
T ss_pred             CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchH-HHHHHHHHHc--CCCeEEEEeecCCCccc
Confidence            3689999999999999988899999999999999998642   11   11 1112222222  566 9999999999531


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC-----CeEEEeccCCCCcHHHHHH
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS-----PAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ..    .........++...+++..++     .+++++||++|.|+.++++
T Consensus       171 ~~----~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          171 NW----SNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             ch----HHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            10    000001122344555655554     3699999999999999655

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.44  E-value=1.4e-13  Score=109.32  Aligned_cols=120  Identities=18%  Similarity=0.144  Sum_probs=86.9

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQ  109 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~  109 (179)
                      +......+.||||||+++|...+..+++.+|++|+|+|+++....+.. ..| ..+...  ++| +++++||+|+..+..
T Consensus        61 ~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~-e~l-~~~~~~--~vp~iivviNK~Dl~~~~~  136 (397)
T 1d2e_A           61 YSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTR-EHL-LLARQI--GVEHVVVYVNKADAVQDSE  136 (397)
T ss_dssp             EECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHH-HHH-HHHHHT--TCCCEEEEEECGGGCSCHH
T ss_pred             eccCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHH-HHH-HHHHHc--CCCeEEEEEECcccCCCHH
Confidence            333446799999999999988888889999999999999986555443 333 344333  678 789999999974211


Q ss_pred             cccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCc----------HHHHHHHHHHHHhC
Q 030337          110 FFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQN----------VKAVFDAAIKVVLQ  161 (179)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~----------i~~~f~~l~~~i~~  161 (179)
                             ......++..++++.+++    .+++++||++|.|          +.++++.+.+.+-.
T Consensus       137 -------~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          137 -------MVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             -------HHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             -------HHHHHHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCCC
Confidence                   000123456677777764    3799999999764          88999988886653

>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=99.43  E-value=3.7e-14  Score=113.98  Aligned_cols=115  Identities=17%  Similarity=0.158  Sum_probs=80.5

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-----CC-CcEEEEEeCCCccc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-----PG-VPIILVGTKLDLRD  106 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-----~~-~piilv~nK~D~~~  106 (179)
                      ...+.+.||||||+++|...+..+++.+|++|+|+|+++ .+|+.. ..|..+.++..     .+ .|+++++||+|+.+
T Consensus        81 ~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~-~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A           81 TKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAG-MSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             CSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHH-HSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             cCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-Cccccc-cccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence            334689999999999999888889999999999999999 777754 33322222211     13 46999999999975


Q ss_pred             ccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHHHH
Q 030337          107 DKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ...    .........++...+++..+.    .+++++||++|.|+.+++.
T Consensus       159 ~~~----~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          159 PPY----DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             STT----CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             ccc----cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            210    000001224556777777763    4799999999999986543

>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=99.42  E-value=1.8e-13  Score=109.93  Aligned_cols=109  Identities=17%  Similarity=0.101  Sum_probs=77.6

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      ....+.||||||+++|...+..+++.+|++|+|+|+++....+..  .++..+... .-.|+++|+||+|+.....    
T Consensus       102 ~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~--~~l~~~~~~-~~~~iIvviNK~Dl~~~~~----  174 (434)
T 1zun_B          102 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTR--RHSYIASLL-GIKHIVVAINKMDLNGFDE----  174 (434)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHH--HHHHHHHHT-TCCEEEEEEECTTTTTSCH----
T ss_pred             CCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH--HHHHHHHHc-CCCeEEEEEEcCcCCcccH----
Confidence            346799999999999988888889999999999999987544432  333344333 2236999999999975211    


Q ss_pred             CCCCccccHHHHHHHHHHhC--C--CeEEEeccCCCCcHHHH
Q 030337          114 HPGAVPITTAQGEELRKLIG--S--PAYIECSSKTQQNVKAV  151 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~--~--~~~~e~Sa~~~~~i~~~  151 (179)
                        .......++...+++.++  .  .+++++||++|.|+.++
T Consensus       175 --~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~  214 (434)
T 1zun_B          175 --RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNK  214 (434)
T ss_dssp             --HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSC
T ss_pred             --HHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccc
Confidence              000012345566777777  1  37899999999999885

>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=99.41  E-value=9.3e-14  Score=112.53  Aligned_cols=112  Identities=19%  Similarity=0.152  Sum_probs=64.9

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hHHHHHHHHHHHHhhcC-CCCc-EEEEEeCCCccccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SYENVAKKWIPELRHYA-PGVP-IILVGTKLDLRDDKQF  110 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~~~~~~~~~~~i~~~~-~~~p-iilv~nK~D~~~~~~~  110 (179)
                      ..+.||||||+++|...+..+++.+|++|+|+|+++..   +|+.. ..|.+.+.... .++| +++++||+|+..... 
T Consensus       121 ~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~-~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~-  198 (467)
T 1r5b_A          121 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERG-GQTREHAVLARTQGINHLVVVINKMDEPSVQW-  198 (467)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTT-CCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS-
T ss_pred             eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCC-CcHHHHHHHHHHcCCCEEEEEEECccCCCccc-
Confidence            67999999999999998888999999999999999863   33311 11211111111 2577 999999999954110 


Q ss_pred             ccCCCCCccccHHHHHHHHHHh-CC-----CeEEEeccCCCCcHHHHH
Q 030337          111 FIDHPGAVPITTAQGEELRKLI-GS-----PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~e~Sa~~~~~i~~~f  152 (179)
                         .........++...+++.. ++     .+++++||++|.|+.+++
T Consensus       199 ---~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          199 ---SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             ---cHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence               0000012233456666665 43     269999999999998765

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.41  E-value=5.5e-14  Score=106.40  Aligned_cols=142  Identities=13%  Similarity=0.031  Sum_probs=74.4

Q ss_pred             eehh-hhhCCCCCcc-------cCceeecee-eEEEECCeEEEEEEEeCCCCccc-------cccC-------cccc---
Q 030337            4 IYII-CNYSLGKQDY-------VPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDY-------NRLR-------PLSY---   57 (179)
Q Consensus         4 l~~~-~~~~~f~~~~-------~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~-------~~~~-------~~~~---   57 (179)
                      |+.+ +..+.|..++       .||++..+. ..+..++..+.+.||||||....       ..+.       ..|+   
T Consensus        24 Lin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~~l~~~  103 (274)
T 3t5d_A           24 LINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAE  103 (274)
T ss_dssp             HHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHHHHHHHHHHHHHHHHhh
Confidence            4444 5566676666       677764443 44545667789999999997322       2211       1111   


Q ss_pred             ----------cCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH
Q 030337           58 ----------RGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE  126 (179)
Q Consensus        58 ----------~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  126 (179)
                                ..+|+++++++.+... .-.+  ..+++.+..   .+|+++|+||+|+.....        .........
T Consensus       104 ~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d--~~~l~~l~~---~~pvi~V~nK~D~~~~~e--------~~~~~~~i~  170 (274)
T 3t5d_A          104 SRVNRRQMPDNRVQCCLYFIAPSGHGLKPLD--IEFMKRLHE---KVNIIPLIAKADTLTPEE--------CQQFKKQIM  170 (274)
T ss_dssp             HSSCCCSCCCCCCCEEEEEECSCCSSCCHHH--HHHHHHHTT---TSCEEEEESSGGGSCHHH--------HHHHHHHHH
T ss_pred             cccccccccCCceeEEEEEecCCCCCCCHHH--HHHHHHHhc---cCCEEEEEeccCCCCHHH--------HHHHHHHHH
Confidence                      2478999999877632 2222  345556655   699999999999864321        001112344


Q ss_pred             HHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          127 ELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       127 ~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +.....++ .++++||+++.|+.+++++|.+.+
T Consensus       171 ~~l~~~~i-~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          171 KEIQEHKI-KIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHHHTTC-CCCCC-----------CHHHHHTC
T ss_pred             HHHHHcCC-eEEcCCCCCChhHHHHHHHHhcCC
Confidence            45556677 789999999999999999998854

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.40  E-value=4.3e-13  Score=105.62  Aligned_cols=110  Identities=13%  Similarity=-0.000  Sum_probs=79.9

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcE-EEEEe-CCCccccccccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI-ILVGT-KLDLRDDKQFFI  112 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pi-ilv~n-K~D~~~~~~~~~  112 (179)
                      ...+.||||||+++|.......++.+|++|+|+| ++. .+... .++...+...  ++|. ++++| |+|+ +...   
T Consensus        59 ~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g-~~~qt-~e~~~~~~~~--~i~~~ivvvNNK~Dl-~~~~---  129 (370)
T 2elf_A           59 GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQG-LDAHT-GECIIALDLL--GFKHGIIALTRSDST-HMHA---  129 (370)
T ss_dssp             SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTC-CCHHH-HHHHHHHHHT--TCCEEEEEECCGGGS-CHHH---
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCC-CcHHH-HHHHHHHHHc--CCCeEEEEEEeccCC-CHHH---
Confidence            3579999999999998777778899999999999 543 33333 3444455444  5676 88999 9999 4321   


Q ss_pred             CCCCCcccc--HHHHHHHHHHhC--CCeEEE--eccCC---CCcHHHHHHHHHHHHh
Q 030337          113 DHPGAVPIT--TAQGEELRKLIG--SPAYIE--CSSKT---QQNVKAVFDAAIKVVL  160 (179)
Q Consensus       113 ~~~~~~~~~--~~~~~~~~~~~~--~~~~~e--~Sa~~---~~~i~~~f~~l~~~i~  160 (179)
                             +.  .++..++++..+  ..++++  +||++   +.|++++++.|.+.+-
T Consensus       130 -------~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          130 -------IDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVAE  179 (370)
T ss_dssp             -------HHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhcc
Confidence                   22  144555555443  248999  99999   9999999999988754

>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=99.39  E-value=2.7e-14  Score=115.37  Aligned_cols=137  Identities=15%  Similarity=0.058  Sum_probs=83.8

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCC--------CccccccCcccccCccEEEEEEeCCChhh
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAG--------QEDYNRLRPLSYRGADVFILAFSLISKAS   74 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~~~~~~~~i~v~d~~~~~s   74 (179)
                      |+.+++.+.+. ...++.|.... ...........++||||||        ++.+...+..+++++|++|+|+|..+..+
T Consensus        39 L~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~  117 (456)
T 4dcu_A           39 IFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVT  117 (456)
T ss_dssp             HHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSC
T ss_pred             HHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCC
Confidence            45556555542 12223332221 2222333346799999999        66777778888999999999999887555


Q ss_pred             HHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHH
Q 030337           75 YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDA  154 (179)
Q Consensus        75 ~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~  154 (179)
                      ..+.  .+...+++  .+.|+++|+||+|+....              ....++ ..++....+++||++|.|+.++++.
T Consensus       118 ~~d~--~l~~~l~~--~~~pvilV~NK~D~~~~~--------------~~~~e~-~~lg~~~~~~iSA~~g~gv~~L~~~  178 (456)
T 4dcu_A          118 AADE--EVAKILYR--TKKPVVLAVNKLDNTEMR--------------ANIYDF-YSLGFGEPYPISGTHGLGLGDLLDA  178 (456)
T ss_dssp             HHHH--HHHHHHTT--CCSCEEEEEECC-----------------------CCS-GGGSSSSEEECCTTTCTTHHHHHHH
T ss_pred             hHHH--HHHHHHHH--cCCCEEEEEECccchhhh--------------hhHHHH-HHcCCCceEEeecccccchHHHHHH
Confidence            4432  34445544  379999999999985421              111111 1234446789999999999999999


Q ss_pred             HHHHHh
Q 030337          155 AIKVVL  160 (179)
Q Consensus       155 l~~~i~  160 (179)
                      +.+.+.
T Consensus       179 i~~~l~  184 (456)
T 4dcu_A          179 VAEHFK  184 (456)
T ss_dssp             HHTTGG
T ss_pred             HHhhcc
Confidence            988764

>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=99.39  E-value=4.9e-13  Score=116.76  Aligned_cols=122  Identities=20%  Similarity=0.162  Sum_probs=88.9

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~  107 (179)
                      +.++.....+.||||||+++|......+++.+|++|+|+|+++....+..  .++..+...  ++| +++++||+|+.++
T Consensus       352 v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTr--EhL~ll~~l--gIP~IIVVINKiDLv~d  427 (1289)
T 3avx_A          352 VEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTR--EHILLGRQV--GVPYIIVFLNKCDMVDD  427 (1289)
T ss_dssp             EEEECSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHH--HHHHHHHHH--TCSCEEEEEECCTTCCC
T ss_pred             EEEcCCCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHH--HHHHHHHHc--CCCeEEEEEeecccccc
Confidence            34444557899999999999988888899999999999999987544433  344444443  678 8999999999752


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCC--------CcHHHHHHHHHHHHhC
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQ--------QNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~--------~~i~~~f~~l~~~i~~  161 (179)
                      ..       ......++...+++..+.    .+++++||++|        .|+.++++.+.+.+-.
T Consensus       428 ~e-------~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip~  486 (1289)
T 3avx_A          428 EE-------LLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPE  486 (1289)
T ss_dssp             HH-------HHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSCC
T ss_pred             hh-------hHHHHHHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcCC
Confidence            21       000123456677777763    47999999999        4688999988876643

>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=99.39  E-value=1.5e-12  Score=96.37  Aligned_cols=147  Identities=15%  Similarity=0.034  Sum_probs=89.6

Q ss_pred             eeehhhhhCCCCCcccCcee---eceeeEEEECCeEEEEEEEeCCCCc-----------cccccCcccccCccEEEEEEe
Q 030337            3 FIYIICNYSLGKQDYVPTVF---DNFSANVVVDGSTVNLGLWDTAGQE-----------DYNRLRPLSYRGADVFILAFS   68 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~---~~~~~~~~~~~~~~~~~i~D~~G~~-----------~~~~~~~~~~~~~~~~i~v~d   68 (179)
                      +|+.+++...+.....|+.+   ......+.+++  ..+.||||||..           .+...+..+++++|++|+|+|
T Consensus        44 tlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d  121 (239)
T 3lxx_A           44 ATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVP  121 (239)
T ss_dssp             HHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEE
T ss_pred             HHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEee
Confidence            46778888888666655322   22234455666  568999999943           344445556788999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCCcccccccccCCCCCccc--cHHHHHHHHHHhCCCeEEEeccC
Q 030337           69 LISKASYENVAKKWIPELRHYA---PGVPIILVGTKLDLRDDKQFFIDHPGAVPI--TTAQGEELRKLIGSPAYIECSSK  143 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~e~Sa~  143 (179)
                      +++.....   ..|+..+.+..   ...|+++|+||+|+.....      ....+  ..+....+++..+. .++.++..
T Consensus       122 ~~~~~~~~---~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~------~~~~i~~~~~~l~~l~~~~~~-~~~~~~~~  191 (239)
T 3lxx_A          122 LGRYTEEE---HKATEKILKMFGERARSFMILIFTRKDDLGDTN------LHDYLREAPEDIQDLMDIFGD-RYCALNNK  191 (239)
T ss_dssp             TTCCSSHH---HHHHHHHHHHHHHHHGGGEEEEEECGGGC------------------CHHHHHHHHHHSS-SEEECCTT
T ss_pred             CCCCCHHH---HHHHHHHHHHhhhhccceEEEEEeCCccCCccc------HHHHHHhchHHHHHHHHHcCC-EEEEEECC
Confidence            98654422   23333333221   1469999999999965432      00001  12457778888887 67777766


Q ss_pred             CC-----CcHHHHHHHHHHHHhC
Q 030337          144 TQ-----QNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       144 ~~-----~~i~~~f~~l~~~i~~  161 (179)
                      .+     .++.++|..+.+.+.+
T Consensus       192 ~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          192 ATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccccHHHHHHHHHHHHHHHHH
Confidence            44     6899999988776643

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.37  E-value=2.4e-13  Score=102.42  Aligned_cols=107  Identities=8%  Similarity=-0.032  Sum_probs=73.9

Q ss_pred             CCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH---HHHHhhc--CCCCcEEEEEeC-CCcccccccccCCCC
Q 030337           43 TAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW---IPELRHY--APGVPIILVGTK-LDLRDDKQFFIDHPG  116 (179)
Q Consensus        43 ~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~---~~~i~~~--~~~~piilv~nK-~D~~~~~~~~~~~~~  116 (179)
                      .+||+..+++|..||.++|++|||+|.+|.+.++ ...++   ...+.+.  ..++|++|++|| .|++..         
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A---------  263 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR---------  263 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB---------
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC---------
Confidence            5789999999999999999999999999997544 22322   2333332  257999999997 588642         


Q ss_pred             CccccHHHHHHHHHH---hCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          117 AVPITTAQGEELRKL---IGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       117 ~~~~~~~~~~~~~~~---~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                         .+..+..+....   ..-+.++.|||++|.|+.+.++||++.+..+
T Consensus       264 ---ms~~EI~e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          264 ---MPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             ---CCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             ---CCHHHHHHHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence               333333222111   1223578899999999999999999987543

>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=99.35  E-value=1.6e-12  Score=105.04  Aligned_cols=110  Identities=15%  Similarity=0.121  Sum_probs=76.9

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hH----HHHHHHHHHHHhhcCCCCc-EEEEEeCCC
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SY----ENVAKKWIPELRHYAPGVP-IILVGTKLD  103 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~----~~~~~~~~~~i~~~~~~~p-iilv~nK~D  103 (179)
                      ......+.||||||+++|...+..+++.+|++|+|+|+++..   +|    +.. ..| ..+...  ++| +++|+||+|
T Consensus        81 ~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~-~~~-~~~~~~--~v~~iivviNK~D  156 (458)
T 1f60_A           81 ETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTR-EHA-LLAFTL--GVRQLIVAVNKMD  156 (458)
T ss_dssp             ECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHH-HHH-HHHHHT--TCCEEEEEEECGG
T ss_pred             ecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHH-HHH-HHHHHc--CCCeEEEEEEccc
Confidence            334478999999999999988888999999999999999763   33    332 222 233322  455 999999999


Q ss_pred             cccccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHH
Q 030337          104 LRDDKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAV  151 (179)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~  151 (179)
                      +.+...      .......++...+++.+++    .+++++||++|.|+.+.
T Consensus       157 l~~~~~------~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          157 SVKWDE------SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GGTTCH------HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             cccCCH------HHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            973110      0001123455666777764    47999999999998743

>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=99.34  E-value=2.7e-12  Score=108.04  Aligned_cols=71  Identities=21%  Similarity=0.139  Sum_probs=57.0

Q ss_pred             ECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           31 VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        31 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +....+.++||||+|+++|...+..+++.+|++++|+|+++....+..  .++..+...  ++|+++|+||+|+.
T Consensus        69 ~~~~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~--~~~~~~~~~--~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           69 LLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTE--RAWTVAERL--GLPRMVVVTKLDKG  139 (665)
T ss_dssp             EEETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHH--HHHHHHHHT--TCCEEEEEECGGGC
T ss_pred             EeeCCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHH--HHHHHHHHc--cCCEEEEecCCchh
Confidence            333348899999999999988888899999999999999887665543  444444443  69999999999986

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.32  E-value=3.4e-12  Score=92.28  Aligned_cols=143  Identities=10%  Similarity=-0.060  Sum_probs=82.2

Q ss_pred             eehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCcc----------ccccCcccc---cCccEEEEEEeC
Q 030337            4 IYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQED----------YNRLRPLSY---RGADVFILAFSL   69 (179)
Q Consensus         4 l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~~---~~~~~~i~v~d~   69 (179)
                      |+.++....|...+.|+.|.... ..+.+++   .+.+|||+|...          +......++   +.++++++++|+
T Consensus        42 Ll~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~  118 (210)
T 1pui_A           42 ALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDI  118 (210)
T ss_dssp             HHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEET
T ss_pred             HHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEEC
Confidence            45566666666666778774432 3344444   478999999743          222222333   578999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC-CeEEEeccCCCCcH
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS-PAYIECSSKTQQNV  148 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i  148 (179)
                      +++.++...  .....+..  .+.|+++|+||+|+.....        +......+..++...+. ..++++||+++.|+
T Consensus       119 ~~~~~~~~~--~~~~~~~~--~~~~~~~v~nK~D~~s~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~  186 (210)
T 1pui_A          119 RHPLKDLDQ--QMIEWAVD--SNIAVLVLLTKADKLASGA--------RKAQLNMVREAVLAFNGDVQVETFSSLKKQGV  186 (210)
T ss_dssp             TSCCCHHHH--HHHHHHHH--TTCCEEEEEECGGGSCHHH--------HHHHHHHHHHHHGGGCSCEEEEECBTTTTBSH
T ss_pred             CCCCchhHH--HHHHHHHH--cCCCeEEEEecccCCCchh--------HHHHHHHHHHHHHhcCCCCceEEEeecCCCCH
Confidence            987665432  12222222  2689999999999864221        01123455555555542 36788999999999


Q ss_pred             HHHHHHHHHHHhC
Q 030337          149 KAVFDAAIKVVLQ  161 (179)
Q Consensus       149 ~~~f~~l~~~i~~  161 (179)
                      +++++++.+.+.+
T Consensus       187 ~~l~~~l~~~~~~  199 (210)
T 1pui_A          187 DKLRQKLDTWFSE  199 (210)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887644

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.30  E-value=3.5e-12  Score=106.28  Aligned_cols=110  Identities=17%  Similarity=0.137  Sum_probs=73.4

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---hH---HHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---SY---ENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---s~---~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ..+.+.||||||+++|...+..+++.+|++|+|+|+++..   +|   ... ...+..+.. ..-.|++||+||+|+...
T Consensus       243 ~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt-~e~l~~~~~-lgi~~iIVVvNKiDl~~~  320 (611)
T 3izq_1          243 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQT-KEHMLLASS-LGIHNLIIAMNKMDNVDW  320 (611)
T ss_dssp             SSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHH-HHHHHHHHT-TTCCEEEEEEECTTTTTT
T ss_pred             CCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHH-HHHHHHHHH-cCCCeEEEEEecccccch
Confidence            3468999999999999999899999999999999999752   11   011 111112222 123459999999999752


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHHH
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKAV  151 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~~  151 (179)
                      ..      ........+...++...+.    .+++++||++|.|+.++
T Consensus       321 ~~------~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          321 SQ------QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             CH------HHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             hH------HHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            21      0000112334455555553    37999999999999876

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.25  E-value=9.4e-13  Score=100.37  Aligned_cols=110  Identities=22%  Similarity=0.100  Sum_probs=74.8

Q ss_pred             EEEEEEeCCCCc-------------cccccCcccccCccEEE-EEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           36 VNLGLWDTAGQE-------------DYNRLRPLSYRGADVFI-LAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        36 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~~~~i-~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      ..+.||||||..             .+..++..|+++++++| +|+|+++..+.++. ..|...+...  +.|+++|+||
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~-~~~~~~~~~~--~~~~i~V~NK  201 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LKIAKEVDPQ--GQRTIGVITK  201 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH-HHHHHHHCTT--CSSEEEEEEC
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH-HHHHHHhCCC--CCeEEEEEEc
Confidence            579999999964             34455667888888777 79999887655544 3455555433  6899999999


Q ss_pred             CCcccccccccCCCCCccccHHHHHHHHHH--hCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEELRKL--IGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +|+.+...          ...+........  .+...++++||++|.|++++|+++.+.
T Consensus       202 ~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          202 LDLMDEGT----------DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             GGGSCTTC----------CCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             cccCCCCc----------hHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            99975331          122221110001  122357889999999999999998873

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.24  E-value=6e-13  Score=110.56  Aligned_cols=102  Identities=19%  Similarity=0.204  Sum_probs=59.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh----------hHHHHHHHHHHHHhhcCCCCc-EEEEEeCCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA----------SYENVAKKWIPELRHYAPGVP-IILVGTKLD  103 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~----------s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D  103 (179)
                      ...+.||||||+++|...+..+++.+|++|+|+|+++..          +.+.+     ..+...  ++| +++|+||+|
T Consensus       254 ~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l-----~~~~~l--gip~iIvviNKiD  326 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHA-----YLLRAL--GISEIVVSVNKLD  326 (592)
T ss_dssp             -----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHH-----HHHHHS--SCCCEEEEEECGG
T ss_pred             CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHH-----HHHHHc--CCCeEEEEEeccc
Confidence            468999999999999999999999999999999999642          33222     122222  455 999999999


Q ss_pred             cccccccccCCCCCccccHHHHHHHH-HHhCCC----eEEEeccCCCCcHH
Q 030337          104 LRDDKQFFIDHPGAVPITTAQGEELR-KLIGSP----AYIECSSKTQQNVK  149 (179)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~----~~~e~Sa~~~~~i~  149 (179)
                      +.....      ........+...+. +..++.    +++++||++|.|+.
T Consensus       327 l~~~~~------~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          327 LMSWSE------DRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             GGTTCH------HHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccccH------HHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            965211      00001122333344 334542    68999999999998

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.23  E-value=1.6e-11  Score=92.26  Aligned_cols=101  Identities=12%  Similarity=0.047  Sum_probs=69.6

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCccccc---------CccEEEEEEeCCC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYR---------GADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---------~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+  ...+.++........+..++  ..+.||||||++++......+++         +++++++|++++.
T Consensus        51 SLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~  128 (262)
T 3def_A           51 STVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDV  128 (262)
T ss_dssp             HHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSC
T ss_pred             HHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCC
Confidence            36677777774  44455544334445555666  58999999999988776655554         8899999999987


Q ss_pred             hhhHHHHHHHHHHHHhhcCC---CCcEEEEEeCCCccc
Q 030337           72 KASYENVAKKWIPELRHYAP---GVPIILVGTKLDLRD  106 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~D~~~  106 (179)
                      .. +......|+..+.....   ..|+++|+||+|+..
T Consensus       129 ~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          129 YA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             SC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCC
T ss_pred             CC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCC
Confidence            55 43332467777766542   249999999999964

>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=99.20  E-value=9.3e-11  Score=96.23  Aligned_cols=70  Identities=20%  Similarity=0.226  Sum_probs=55.3

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ..+.+.||||||+++|...+..+++.+|++|+|+|+++....+..  .+...+...  ++|+++++||+|+...
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~--~~~~~~~~~--~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           80 HDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTR--KLMEVTRLR--DTPILTFMNKLDRDIR  149 (529)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHH--HHHHHHTTT--TCCEEEEEECTTSCCS
T ss_pred             CCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHH--HHHHHHHHc--CCCEEEEEcCcCCccc
Confidence            347899999999999998888899999999999999987544332  333333332  7899999999999754

>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=99.15  E-value=2e-10  Score=97.27  Aligned_cols=71  Identities=20%  Similarity=0.273  Sum_probs=58.0

Q ss_pred             CeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           33 GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        33 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +..+.++||||||+.+|...+..+++.+|++|+|+|+++..+.+.. ..|. .+...  ++|+++|+||+|+...
T Consensus        79 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~-~~~~-~~~~~--~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           79 YEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSE-TVWR-QANKY--KVPRIAFVNKMDRMGA  149 (704)
T ss_pred             CCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHH-HHHH-HHHHc--CCCEEEEEeCCCcccc
Confidence            3458999999999999998888999999999999999988776655 4443 33332  7999999999999753

>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=99.12  E-value=3.3e-10  Score=95.75  Aligned_cols=68  Identities=24%  Similarity=0.302  Sum_probs=58.1

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.++||||||+.+|...+..+++.+|++|+|+|+++..+++.. ..|.. +...  ++|+++|+||+|+...
T Consensus        77 ~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~-~~~~~-~~~~--~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           77 HRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSE-TVWRQ-AEKY--KVPRIAFANKMDKTGA  144 (691)
T ss_dssp             EEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHH-HHHT--TCCEEEEEECTTSTTC
T ss_pred             eEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhH-HHHHH-HHHc--CCCEEEEEECCCcccC
Confidence            7899999999999998888999999999999999998888776 55543 3333  7999999999999753

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.12  E-value=8.3e-11  Score=92.50  Aligned_cols=98  Identities=17%  Similarity=0.249  Sum_probs=75.6

Q ss_pred             CCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHH
Q 030337           45 GQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQ  124 (179)
Q Consensus        45 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~  124 (179)
                      ..++|..++..+++.++++++|+|++|+.      ..|...+.+...+.|+++|+||+|+.+..           ...+.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~------~~~~~~l~~~~~~~p~ilV~NK~DL~~~~-----------~~~~~  117 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN------GSWLPGLHRFVGNNKVLLVGNKADLIPKS-----------VKHDK  117 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH------HHCCTTHHHHSSSSCEEEEEECGGGSCTT-----------SCHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc------ccHHHHHHHHhCCCcEEEEEEChhcCCcc-----------cCHHH
Confidence            46789999999999999999999999863      35666666666689999999999997532           22333


Q ss_pred             H----HHHHHHhCCC--eEEEeccCCCCcHHHHHHHHHHHH
Q 030337          125 G----EELRKLIGSP--AYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       125 ~----~~~~~~~~~~--~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .    ..+++..|..  .++++||++|.|++++++.+.+..
T Consensus       118 ~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          118 VKHWMRYSAKQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHHHHHHHHHHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            3    3345666662  689999999999999999997653

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.11  E-value=8.1e-12  Score=95.77  Aligned_cols=117  Identities=11%  Similarity=0.079  Sum_probs=65.2

Q ss_pred             CCeEEEEEEEeCCCC-------ccccccCc-------ccccC-------------ccEEEEEEeCCChhhHHHHHHHHHH
Q 030337           32 DGSTVNLGLWDTAGQ-------EDYNRLRP-------LSYRG-------------ADVFILAFSLISKASYENVAKKWIP   84 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~-------~~~~~~~~-------~~~~~-------------~~~~i~v~d~~~~~s~~~~~~~~~~   84 (179)
                      ++....+++|||+|.       +.+..+..       .+++.             +++++++.+.+. .+++.....+  
T Consensus        72 ~~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~~~--  148 (301)
T 2qnr_A           72 RGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDVAF--  148 (301)
T ss_dssp             --CCEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHHHH--
T ss_pred             CCcccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHHHH--
Confidence            455678999999998       55555544       44333             233444444321 1344432233  


Q ss_pred             HHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337           85 ELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus        85 ~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                       ++......|+++|+||.|+.....        .....+++.++++..++ .++++||+++ |++++|.++.+.+...
T Consensus       149 -l~~l~~~~~iilV~~K~Dl~~~~e--------~~~~~~~~~~~~~~~~~-~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          149 -MKAIHNKVNIVPVIAKADTLTLKE--------RERLKKRILDEIEEHNI-KIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             -HHHHTTTSCEEEEECCGGGSCHHH--------HHHHHHHHHHHHHHTTC-CCCCCC----------CHHHHHHHHTT
T ss_pred             -HHHHHhcCCEEEEEEeCCCCCHHH--------HHHHHHHHHHHHHHcCC-eEEecCCccc-cccHHHHHHHHHhhcC
Confidence             333334689999999999965331        01234677888899998 8999999999 9999999999988654

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.08  E-value=5.9e-10  Score=83.95  Aligned_cols=102  Identities=13%  Similarity=0.011  Sum_probs=64.6

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcc---------cccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPL---------SYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.+.+.  ..+.++........+..++  +.+.||||||.+++......         ..+.+|++++|+|++.
T Consensus        54 SLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~  131 (270)
T 1h65_A           54 STVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDA  131 (270)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSC
T ss_pred             HHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCC
Confidence            456777777653  2233332222222333344  78999999999877544331         2357999999999976


Q ss_pred             hhhHHHHHHHHHHHHhhcCC-C--CcEEEEEeCCCcccc
Q 030337           72 KASYENVAKKWIPELRHYAP-G--VPIILVGTKLDLRDD  107 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~-~--~piilv~nK~D~~~~  107 (179)
                      . ++......|+..+....+ +  .|+++|+||+|+...
T Consensus       132 ~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~  169 (270)
T 1h65_A          132 Y-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  169 (270)
T ss_dssp             C-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             C-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCc
Confidence            4 344332467777765532 2  699999999999653

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.07  E-value=1.1e-09  Score=92.56  Aligned_cols=73  Identities=23%  Similarity=0.305  Sum_probs=60.0

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.+++  +.++||||||+.+|...+..+++.+|++|+|+|+++..+++.. ..|. .+...  +.|+++|+||+|+...
T Consensus        70 ~~~~~--~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~-~~~~-~~~~~--~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           70 AAWEG--HRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTE-TVWR-QATTY--GVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             EEETT--EEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHH-HHHH-HHHHT--TCCEEEEEECTTSTTC
T ss_pred             EEECC--eeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHH-HHHH-HHHHc--CCCEEEEEECCCcccc
Confidence            44455  7899999999999988888899999999999999998888776 4454 34443  7899999999999753

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.07  E-value=1.8e-10  Score=97.42  Aligned_cols=118  Identities=10%  Similarity=0.107  Sum_probs=80.0

Q ss_pred             EEEEEeCCCCcc---ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           37 NLGLWDTAGQED---YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        37 ~~~i~D~~G~~~---~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      .+.||||||...   ....+..+++++|++|+|+|++++.+..+. ..|...+...  +.|+++|+||+|+.....    
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~-~~l~~~l~~~--~~~iiiVlNK~Dl~~~~~----  247 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGER-RYLENYIKGR--GLTVFFLVNAWDQVRESL----  247 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHH-HHHHHHTTTS--CCCEEEEEECGGGGGGGC----
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHH-HHHHHHHHhh--CCCEEEEEECcccccccc----
Confidence            589999999654   334556788999999999999999888876 5565555443  678999999999965321    


Q ss_pred             CCCCccc-cHH----HHHH-----HHHHhC-------CCeEEEeccC--------------CCCcHHHHHHHHHHHHhCC
Q 030337          114 HPGAVPI-TTA----QGEE-----LRKLIG-------SPAYIECSSK--------------TQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       114 ~~~~~~~-~~~----~~~~-----~~~~~~-------~~~~~e~Sa~--------------~~~~i~~~f~~l~~~i~~~  162 (179)
                       ...... ..+    ....     +....+       ...++++||+              ++.|+++++..+.+.+...
T Consensus       248 -~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~~  326 (695)
T 2j69_A          248 -IDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRE  326 (695)
T ss_dssp             -SSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHHT
T ss_pred             -cChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHHh
Confidence             000000 000    1111     111111       1258999999              9999999999998877543

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.04  E-value=2.9e-10  Score=90.66  Aligned_cols=114  Identities=13%  Similarity=0.081  Sum_probs=60.1

Q ss_pred             CCeEEEEEEEeCCCCccccc-------------------------cCcccccCccEEEEEEeCCCh-hhHHHHHHHHHHH
Q 030337           32 DGSTVNLGLWDTAGQEDYNR-------------------------LRPLSYRGADVFILAFSLISK-ASYENVAKKWIPE   85 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~-------------------------~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~~   85 (179)
                      ++....+++|||+|...+..                         +...+++++++.+++|+.+.. .++......|+..
T Consensus        84 ~~~~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~  163 (418)
T 2qag_C           84 GGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKR  163 (418)
T ss_dssp             ---CEEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHH
T ss_pred             CCcccceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHH
Confidence            44456899999999865421                         234567777776666666543 3555542357766


Q ss_pred             HhhcCCCCcEEEEEeCCCcccccccccCCCCCccccH--HHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           86 LRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT--AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        86 i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..   .+|+|+|+||+|+.....          +..  ..+...+...++ .++++|++++.++.++|..+...+
T Consensus       164 L~~---~v~iIlVinK~Dll~~~e----------v~~~k~~i~~~~~~~~i-~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          164 LHE---KVNIIPLIAKADTLTPEE----------CQQFKKQIMKEIQEHKI-KIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HTT---TSEEEEEEESTTSSCHHH----------HHHHHHHHHHHHHHHTC-CCCCCC-----------------C
T ss_pred             Hhc---cCcEEEEEEcccCccHHH----------HHHHHHHHHHHHHHcCC-eEEeCCCCCCcCHHHHHHHHHhhC
Confidence            653   699999999999965432          443  567778888888 899999999999999988887754

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.01  E-value=3e-09  Score=84.80  Aligned_cols=113  Identities=17%  Similarity=0.150  Sum_probs=80.9

Q ss_pred             EEEEEEeCCCCcc----ccccCccc---ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCCcc
Q 030337           36 VNLGLWDTAGQED----YNRLRPLS---YRGADVFILAFSLISKASYENVAKKWIPELRHYA---PGVPIILVGTKLDLR  105 (179)
Q Consensus        36 ~~~~i~D~~G~~~----~~~~~~~~---~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D~~  105 (179)
                      ..+.+||++|...    +..+...+   ...++.++.++|++ ..++.++ ..|..++....   .+.|.++|+||+|+.
T Consensus       205 ~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls-~~~~~~l-s~g~~el~~la~aL~~~P~ILVlNKlDl~  282 (416)
T 1udx_A          205 ERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA-DEPLKTL-ETLRKEVGAYDPALLRRPSLVALNKVDLL  282 (416)
T ss_dssp             CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT-SCHHHHH-HHHHHHHHHHCHHHHHSCEEEEEECCTTS
T ss_pred             ceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc-cCCHHHH-HHHHHHHHHHhHHhhcCCEEEEEECCChh
Confidence            4688999999743    22232223   35699999999998 5567666 56666665543   268999999999985


Q ss_pred             cccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCCc
Q 030337          106 DDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP  163 (179)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~~  163 (179)
                      ..            ...+.....++..+. .++.+||+++.|++++++++.+.+....
T Consensus       283 ~~------------~~~~~l~~~l~~~g~-~vi~iSA~~g~gi~eL~~~i~~~l~~~~  327 (416)
T 1udx_A          283 EE------------EAVKALADALAREGL-AVLPVSALTGAGLPALKEALHALVRSTP  327 (416)
T ss_dssp             CH------------HHHHHHHHHHHTTTS-CEEECCTTTCTTHHHHHHHHHHHHHTSC
T ss_pred             hH------------HHHHHHHHHHHhcCC-eEEEEECCCccCHHHHHHHHHHHHHhcc
Confidence            42            122333444455566 7999999999999999999999887544

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.00  E-value=2.8e-10  Score=89.58  Aligned_cols=99  Identities=17%  Similarity=0.232  Sum_probs=73.8

Q ss_pred             CCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHH
Q 030337           44 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTA  123 (179)
Q Consensus        44 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~  123 (179)
                      ..+++|++++..+++.++++++|+|++++.+      .|.+.+.+...+.|+++|+||+|+.+..           ...+
T Consensus        56 ~~~e~f~~~L~~~~~~~~lil~VvD~~d~~~------s~~~~l~~~l~~~piilV~NK~DLl~~~-----------~~~~  118 (369)
T 3ec1_A           56 LDDDDFLSMLHRIGESKALVVNIVDIFDFNG------SFIPGLPRFAADNPILLVGNKADLLPRS-----------VKYP  118 (369)
T ss_dssp             ---CHHHHHHHHHHHHCCEEEEEEETTCSGG------GCCSSHHHHCTTSCEEEEEECGGGSCTT-----------CCHH
T ss_pred             CCHHHHHHHHHHhhccCcEEEEEEECCCCCC------chhhHHHHHhCCCCEEEEEEChhcCCCc-----------cCHH
Confidence            4588999998889999999999999999873      3444455555578999999999997532           2223


Q ss_pred             HHH----HHHHHhCC--CeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          124 QGE----ELRKLIGS--PAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       124 ~~~----~~~~~~~~--~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...    .+++..|.  ..++.+||++|.|++++++.+.+..
T Consensus       119 ~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          119 KLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HHHHHHHHHHHTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            333    33555665  3689999999999999999987654

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=98.99  E-value=5.7e-11  Score=93.12  Aligned_cols=106  Identities=21%  Similarity=0.160  Sum_probs=73.6

Q ss_pred             EEEEEEeCCCCccc-------------cccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEEEEEeC
Q 030337           36 VNLGLWDTAGQEDY-------------NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTK  101 (179)
Q Consensus        36 ~~~~i~D~~G~~~~-------------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK  101 (179)
                      ..+.+|||||..++             ..+...|+++++++|+|+|.++.....   ..|+..++... .+.|+++|+||
T Consensus       136 ~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~---~~~~~l~~~~~~~~~~~i~V~nK  212 (360)
T 3t34_A          136 VNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT---SDAIKISREVDPSGDRTFGVLTK  212 (360)
T ss_dssp             CSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG---CHHHHHHHHSCTTCTTEEEEEEC
T ss_pred             CCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC---HHHHHHHHHhcccCCCEEEEEeC
Confidence            46899999998876             445667899999999999986544332   12333344333 36899999999


Q ss_pred             CCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      +|+.....          ...+.+..+...++. +|+++|+.++.++++.+...
T Consensus       213 ~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~v~~~s~~~i~~~~~~~  255 (360)
T 3t34_A          213 IDLMDKGT----------DAVEILEGRSFKLKY-PWVGVVNRSQADINKNVDMI  255 (360)
T ss_dssp             GGGCCTTC----------CSHHHHTTSSSCCSS-CCEEECCCCHHHHHTTCCHH
T ss_pred             CccCCCcc----------cHHHHHcCccccccC-CeEEEEECChHHhccCCCHH
Confidence            99975432          333334444445665 79999999998888765543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.96  E-value=1.3e-12  Score=95.70  Aligned_cols=59  Identities=24%  Similarity=0.166  Sum_probs=45.7

Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ..|.++|+||+|+.....          ...++...+++.++ ..+++++||++|.|++++|+++.+.+.
T Consensus       164 ~~~~iiv~NK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVG----------ADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             TTCSEEEEECGGGHHHHT----------CCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhH----------HHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            467899999999965331          45566666666553 238999999999999999999988764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=98.95  E-value=2.2e-09  Score=80.10  Aligned_cols=114  Identities=13%  Similarity=0.011  Sum_probs=68.7

Q ss_pred             EEEEEEeCCCCccccccCc------ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhh-cCCCCcEEEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRP------LSYRGADVFILAFSLISKASYENVAKKWIPELRH-YAPGVPIILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~------~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~-~~~~~piilv~nK~D~~~~~  108 (179)
                      +.+.||||+|+........      ..+.+ +++++++|.....+..+....+...... ...+.|+++|+||+|+....
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            5789999999976543322      14466 8888898876443332221111111111 11268999999999986432


Q ss_pred             ccccCCCCCcccc--HH---HHH----H-----------------HHHHhCC-CeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          109 QFFIDHPGAVPIT--TA---QGE----E-----------------LRKLIGS-PAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       109 ~~~~~~~~~~~~~--~~---~~~----~-----------------~~~~~~~-~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      .          +.  .+   +..    .                 +++.++. .+++++||+++.|++++++++.+.+.
T Consensus       188 ~----------~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          188 E----------KERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             H----------HHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             c----------HHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            1          10  00   000    1                 1234443 27899999999999999999988653

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.92  E-value=3.8e-09  Score=76.81  Aligned_cols=105  Identities=17%  Similarity=0.087  Sum_probs=70.4

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.+|||+|+.....   .+...++.+++|+|+++.....   ..+....     +.|+++|+||+|+.....      
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~~---~~~~~~~-----~~~~iiv~NK~Dl~~~~~------  171 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDVV---EKHPEIF-----RVADLIVINKVALAEAVG------  171 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTHH---HHCHHHH-----HTCSEEEEECGGGHHHHT------
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchhh---hhhhhhh-----hcCCEEEEecccCCcchh------
Confidence            5688999999621111   1112578899999988764321   1122221     478999999999965321      


Q ss_pred             CCccccHHHHHHHHHHhC-CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          116 GAVPITTAQGEELRKLIG-SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                          ...+.....++..+ ..+++++||++|.|++++|+++.+.+..
T Consensus       172 ----~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          172 ----ADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             ----CCHHHHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             ----hHHHHHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence                34455556555543 2389999999999999999999988754

>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=98.90  E-value=9.3e-10  Score=84.38  Aligned_cols=112  Identities=19%  Similarity=0.184  Sum_probs=69.0

Q ss_pred             EEEEEEeCCCCcc-------------ccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           36 VNLGLWDTAGQED-------------YNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        36 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      ..+.+|||||...             +...+..+++++|++++|+|.++.. +.... ..+...+..  .+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~-~~i~~~~~~--~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDA-LQLAKEVDP--EGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSH-HHHHHHHCS--SCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHH-HHHHHHhCC--CCCcEEEEEcC
Confidence            5699999999754             3445566789999999999985432 11111 133334433  26899999999


Q ss_pred             CCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCC------CCcHHHHHHHHHHHHhC
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKT------QQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~------~~~i~~~f~~l~~~i~~  161 (179)
                      +|+.....          ...+.+......++. .++++|+.+      +.|+.++++.+...+-.
T Consensus       208 ~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGT----------DAMEVLTGRVIPLTL-GFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSC----------CCHHHHTTSSSCCTT-CEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcch----------HHHHHHhCCCccCCC-CeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            99975331          111222110011113 566665554      68889999988877654

>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=98.89  E-value=1.1e-09  Score=94.42  Aligned_cols=71  Identities=18%  Similarity=0.216  Sum_probs=60.6

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++..+++.. ..|.....   .++|+++|+||+|+..
T Consensus        94 ~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~-~~~~~~~~---~~~p~ilviNK~D~~~  164 (842)
T 1n0u_A           94 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTE-TVLRQALG---ERIKPVVVINKVDRAL  164 (842)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHH-HHHHHHHH---TTCEEEEEEECHHHHH
T ss_pred             cCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCeEEEEECCCcch
Confidence            44578999999999999999999999999999999999999888876 55654332   2689999999999963

>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=98.83  E-value=4.2e-09  Score=82.39  Aligned_cols=103  Identities=17%  Similarity=0.158  Sum_probs=69.3

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +.+.||||+|....   ....+..+|++++|+|.+..+.++.+ .       ......|+++|+||+|+.....      
T Consensus       172 ~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~l-~-------~~~~~~p~ivVlNK~Dl~~~~~------  234 (355)
T 3p32_A          172 FDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQGI-K-------KGVLELADIVVVNKADGEHHKE------  234 (355)
T ss_dssp             CCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTTC-C-------TTSGGGCSEEEEECCCGGGHHH------
T ss_pred             CCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHHH-H-------HhHhhcCCEEEEECCCCcChhH------
Confidence            67899999995331   12345889999999998776555433 1       1112469999999999964321      


Q ss_pred             CCccccHHHHHHHHHH---hC------CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          116 GAVPITTAQGEELRKL---IG------SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~---~~------~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                          .. ....++...   .+      ..+++.+||++|.|++++++++.+.+.
T Consensus       235 ----~~-~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~  283 (355)
T 3p32_A          235 ----AR-LAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQ  283 (355)
T ss_dssp             ----HH-HHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHH
T ss_pred             ----HH-HHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHH
Confidence                11 111222222   21      137999999999999999999988764

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.77  E-value=5.6e-08  Score=80.10  Aligned_cols=73  Identities=15%  Similarity=0.130  Sum_probs=59.6

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.+++  +.++|.||||+.+|.......++-+|++|+|+|+.+...-+-. ..|. ...++  ++|++++.||+|+...
T Consensus        95 ~~~~~--~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~-~v~~-~a~~~--~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A           95 FPYRD--RVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTR-KLMD-VCRMR--ATPVMTFVNKMDREAL  167 (548)
T ss_dssp             EEETT--EEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHH-HHHH-HHHHT--TCCEEEEEECTTSCCC
T ss_pred             EEECC--EEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccH-HHHH-HHHHh--CCceEEEEecccchhc
Confidence            44555  7899999999999999888899999999999999988766654 4553 44444  7999999999999653

>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=98.75  E-value=1.4e-08  Score=80.62  Aligned_cols=38  Identities=21%  Similarity=0.142  Sum_probs=24.9

Q ss_pred             EEEEEEEeCCCCcc----ccccCc---ccccCccEEEEEEeCCCh
Q 030337           35 TVNLGLWDTAGQED----YNRLRP---LSYRGADVFILAFSLISK   72 (179)
Q Consensus        35 ~~~~~i~D~~G~~~----~~~~~~---~~~~~~~~~i~v~d~~~~   72 (179)
                      .+.+++|||||...    ...+..   .+++++|++++|+|+++.
T Consensus        70 ~~~i~lvDtpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           70 LIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             EEEEEEEECC---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             eEEEEEEECCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            57899999999854    222333   457999999999999875

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.70  E-value=1.7e-08  Score=76.59  Aligned_cols=100  Identities=17%  Similarity=0.108  Sum_probs=67.3

Q ss_pred             EEeCCCCc-cccccCcccccCccEEEEEEeCCChhhHHH--HHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCC
Q 030337           40 LWDTAGQE-DYNRLRPLSYRGADVFILAFSLISKASYEN--VAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPG  116 (179)
Q Consensus        40 i~D~~G~~-~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~--~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~  116 (179)
                      |...||+. .........++++|+++.|+|+.+|.+..+  + ..|+       .+.|+++|+||+|+.+..        
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l-~~~l-------~~kp~ilVlNK~DL~~~~--------   66 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMI-EDIL-------KNKPRIMLLNKADKADAA--------   66 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHH-HHHC-------SSSCEEEEEECGGGSCHH--------
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHH-HHHH-------CCCCEEEEEECcccCCHH--------
Confidence            44578875 333344567899999999999999987652  3 3332       478999999999995421        


Q ss_pred             CccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          117 AVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                          ..+....+.+..+. +++.+||+++.|+.++++.+.+.+.
T Consensus        67 ----~~~~~~~~~~~~g~-~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           67 ----VTQQWKEHFENQGI-RSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             ----HHHHHHHHHHTTTC-CEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHhcCC-cEEEEECCCcccHHHHHHHHHHHHH
Confidence                11222334444566 7899999999999999998877654

>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=98.68  E-value=4.9e-10  Score=87.63  Aligned_cols=109  Identities=25%  Similarity=0.155  Sum_probs=65.8

Q ss_pred             EEEEEEeCCCCc-------------cccccCcccccCccEEEEE-EeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeC
Q 030337           36 VNLGLWDTAGQE-------------DYNRLRPLSYRGADVFILA-FSLISKASYENVAKKWIPELRHYAPGVPIILVGTK  101 (179)
Q Consensus        36 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~~~~i~v-~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK  101 (179)
                      ..+.||||||..             .+..+...|+++++.+|++ .|.+....-.+. ..+...+..  .+.|+++|+||
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~-~~i~~~~~~--~~~~~i~V~NK  206 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LKVAKEVDP--QGQRTIGVITK  206 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHH-HHHHHHHCT--TCTTEEEEEEC
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHH-HHHHHHhCc--CCCceEEEecc
Confidence            579999999963             3344556677777655554 555442222222 234444433  37899999999


Q ss_pred             CCcccccccccCCCCCccccHHHHHH--HHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          102 LDLRDDKQFFIDHPGAVPITTAQGEE--LRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       102 ~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      +|+.+...          ...+....  +....+...++.+||+++.|++++++.+.+
T Consensus       207 ~Dl~~~~~----------~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          207 LDLMDEGT----------DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             GGGSCTTC----------CCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             ccccCcch----------hHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            99975321          11111110  000123235678999999999999998876

>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=98.62  E-value=6.7e-07  Score=69.96  Aligned_cols=36  Identities=17%  Similarity=0.092  Sum_probs=29.0

Q ss_pred             EEEEEEeCCCCcccc----ccCcc---cccCccEEEEEEeCCC
Q 030337           36 VNLGLWDTAGQEDYN----RLRPL---SYRGADVFILAFSLIS   71 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~----~~~~~---~~~~~~~~i~v~d~~~   71 (179)
                      ..+++|||||..++.    .+...   +++++|++++|+|+++
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            579999999998753    34333   4789999999999986

>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=98.62  E-value=2.2e-08  Score=77.85  Aligned_cols=104  Identities=18%  Similarity=0.216  Sum_probs=65.4

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +.+.||||+|......   .....+|++++|+|.++...++.+ ..   ..    .+.|+++|+||+|+.....      
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l-~~---~~----~~~p~ivv~NK~Dl~~~~~------  211 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGI-KK---GL----MEVADLIVINKDDGDNHTN------  211 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCC-CH---HH----HHHCSEEEECCCCTTCHHH------
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHH-HH---hh----hcccCEEEEECCCCCChHH------
Confidence            5799999999654332   246899999999999765443222 10   11    1468899999999964211      


Q ss_pred             CCccccH--HHHHHHHHHhC------CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          116 GAVPITT--AQGEELRKLIG------SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       116 ~~~~~~~--~~~~~~~~~~~------~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                          ...  .+........+      ...++.+||++|.|++++++++.+.+.
T Consensus       212 ----~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          212 ----VAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             ----HHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence                111  12222222222      347899999999999999999988653

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.56  E-value=7.6e-08  Score=73.72  Aligned_cols=128  Identities=20%  Similarity=0.169  Sum_probs=77.7

Q ss_pred             hhCCCC-CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh-hHHHHHHHHHHHH
Q 030337            9 NYSLGK-QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA-SYENVAKKWIPEL   86 (179)
Q Consensus         9 ~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i   86 (179)
                      ..|.|. ....|.+||.+.....-++..+...+.+     +-..+.+..+.++|.+++|+|+.+|. +...+ +.++...
T Consensus        40 ~rg~~~~~~~~~~vGD~V~~~~~~~~~~~i~~i~~-----R~~~l~R~~~anvD~v~~V~~~~~p~~~~~~i-~r~L~~~  113 (307)
T 1t9h_A           40 GRGIFRKNKITPLVGDYVVYQAENDKEGYLMEIKE-----RTNELIRPPICNVDQAVLVFSAVQPSFSTALL-DRFLVLV  113 (307)
T ss_dssp             SCSSCCSCCCCCCBTCEEEEECCTTSCEEEEEECC-----CSCEETTTTEECCCEEEEEEESTTTTCCHHHH-HHHHHHH
T ss_pred             EcccccccCCCCCCCeEEEEEEcCCCceEEEEEcc-----hhhhhhHHHHHhCCEEEEEEeCCCCCCCHHHH-HHHHHHH
Confidence            344453 2344667766553321112333333333     44445667899999999999999876 44433 6666554


Q ss_pred             hhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHH
Q 030337           87 RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD  153 (179)
Q Consensus        87 ~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~  153 (179)
                      ...  +.|++||.||+|+.++..        .....+......+..|. +.+.+||.++.|+++++.
T Consensus       114 ~~~--~~~~vivlnK~DL~~~~~--------~~~~~~~~~~~y~~~g~-~v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          114 EAN--DIQPIICITKMDLIEDQD--------TEDTIQAYAEDYRNIGY-DVYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             HTT--TCEEEEEEECGGGCCCHH--------HHHHHHHHHHHHHHHTC-CEEECCHHHHTTCTTTGG
T ss_pred             HHC--CCCEEEEEECCccCchhh--------hHHHHHHHHHHHHhCCC-eEEEEecCCCCCHHHHHh
Confidence            433  789999999999965320        00001223334445676 789999999888876654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.53  E-value=3.4e-07  Score=71.38  Aligned_cols=102  Identities=15%  Similarity=0.137  Sum_probs=61.8

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +.+.++||+|....   .......+|.+++|+|++++...+.+ ..   .+    -..|.++|+||+|+.+...      
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i-~~---~i----l~~~~ivVlNK~Dl~~~~~------  229 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGI-KR---GI----IEMADLVAVTKSDGDLIVP------  229 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHH------
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHh-HH---HH----HhcCCEEEEeeecCCCchh------
Confidence            56889999995321   12346789999999999876544333 11   11    1468899999999954210      


Q ss_pred             CCccccHHHHHHHHHHh---------CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLI---------GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~---------~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                          . ......+...+         ..++++.+||++|.|+++++++|.+.+
T Consensus       230 ----~-~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~  277 (349)
T 2www_A          230 ----A-RRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQ  277 (349)
T ss_dssp             ----H-HHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ----H-HHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHH
Confidence                0 01122222211         124789999999999999999998865

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.48  E-value=6.7e-08  Score=79.69  Aligned_cols=67  Identities=21%  Similarity=0.208  Sum_probs=51.3

Q ss_pred             EEEEEeCCCCcc-----------ccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           37 NLGLWDTAGQED-----------YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        37 ~~~i~D~~G~~~-----------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      .+.||||||...           |...+..++..+|++++|+|+++....... ..|+..+...  ..|+++|+||+|+.
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~-~~~l~~l~~~--~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEF-SEAIGALRGH--EDKIRVVLNKADMV  231 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHH-HHHHHHTTTC--GGGEEEEEECGGGS
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHH-HHHHHHHHhc--CCCEEEEEECCCcc
Confidence            589999999865           334455678899999999999886544444 4666666543  58999999999996


Q ss_pred             c
Q 030337          106 D  106 (179)
Q Consensus       106 ~  106 (179)
                      .
T Consensus       232 ~  232 (550)
T 2qpt_A          232 E  232 (550)
T ss_dssp             C
T ss_pred             C
Confidence            5

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.44  E-value=1.1e-06  Score=74.66  Aligned_cols=69  Identities=25%  Similarity=0.332  Sum_probs=56.9

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..+.++|.||||+-+|.......++-+|++|+|+|+.+....+-. ..|....+ .  ++|.+++.||+|+..
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~-~v~~~a~~-~--~lp~i~~iNKiDr~~  151 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSE-TVWRQANK-Y--GVPRIVYVNKMDRQG  151 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHH-H--TCCEEEEEECSSSTT
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHH-HHHHHHHH-c--CCCeEEEEccccccC
Confidence            358999999999999999888899999999999999987766554 34544433 3  699999999999864

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.41  E-value=1.3e-07  Score=79.30  Aligned_cols=70  Identities=23%  Similarity=0.220  Sum_probs=56.2

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.+.++|.||||+.+|.......++-+|++|+|+|+.+.-.-+-. ..|. ...+.  ++|.+++.||+|....
T Consensus        65 ~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~-~v~~-~a~~~--~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           65 ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTR-ILFH-ALRKM--GIPTIFFINKIDQNGI  134 (638)
T ss_dssp             SSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHH-HHHH-HHHHH--TCSCEECCEECCSSSC
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHH-HHHH-HHHHc--CCCeEEEEeccccccC
Confidence            347899999999999999888899999999999999987655543 3443 33343  6899999999998653

>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=98.18  E-value=2.9e-05  Score=60.91  Aligned_cols=52  Identities=10%  Similarity=0.042  Sum_probs=35.0

Q ss_pred             CCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           92 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        92 ~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      ..|+++++||.|..-..      .. .....+....+++..+. .++.+||+...++.++
T Consensus       201 ~KPvi~v~N~~e~d~~~------~~-~n~~~~~v~~~a~~~g~-~vv~iSAk~E~el~eL  252 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPD------GR-GNPQVEAVRRKALEEGA-EVVVVSARLEAELAEL  252 (368)
T ss_dssp             GSCEEEEEECCGGGTTT------CT-TCHHHHHHHHHHHHHTC-EEEEECHHHHHHHHTS
T ss_pred             cCCeEEeccccHHhhcc------cc-hhhHHHHHHHHHHHcCC-eEEEeechhHHHHHHh
Confidence            47999999999853100      00 01445677788888887 8999999875554443

>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=98.12  E-value=3.6e-07  Score=77.63  Aligned_cols=106  Identities=24%  Similarity=0.140  Sum_probs=68.2

Q ss_pred             EEEEEeCCCCccc-------------cccCcccc-cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           37 NLGLWDTAGQEDY-------------NRLRPLSY-RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G~~~~-------------~~~~~~~~-~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      .+.++||||--..             ..+...|+ +.+|++++|+|+++..+-++. ..+...+...  +.|+++|.||+
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~-l~ll~~L~~~--g~pvIlVlNKi  227 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LKIAKEVDPQ--GQRTIGVITKL  227 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHH-HHHHHHHCTT--CSSEEEEEECT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHH-HHHHHHHHhc--CCCEEEEEeCc
Confidence            5789999995431             11223344 578999999999876444332 2344455443  68999999999


Q ss_pred             CcccccccccCCCCCccccHHHHHHHHHH----hCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          103 DLRDDKQFFIDHPGAVPITTAQGEELRKL----IGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       103 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      |+.....          .... ... .+.    .+...++.+||++|.|++++++.+.+
T Consensus       228 Dlv~~~~----------~~~~-il~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          228 DLMDEGT----------DARD-VLE-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             TSSCTTC----------CSHH-HHT-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             ccCCcch----------hhHH-HHH-HHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            9975432          1111 111 001    13234567999999999999998886

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.06  E-value=2.4e-06  Score=63.97  Aligned_cols=93  Identities=15%  Similarity=0.097  Sum_probs=60.5

Q ss_pred             CCCCccc-cccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCcccc
Q 030337           43 TAGQEDY-NRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT  121 (179)
Q Consensus        43 ~~G~~~~-~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~  121 (179)
                      .||+... .......++++|+++.|+|+.+|.+....  .    +. .. +.|.++|.||+|+.+..            .
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~--~----l~-ll-~k~~iivlNK~DL~~~~------------~   63 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY--G----VD-FS-RKETIILLNKVDIADEK------------T   63 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT--T----SC-CT-TSEEEEEEECGGGSCHH------------H
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh--H----HH-hc-CCCcEEEEECccCCCHH------------H
Confidence            4676532 22334578899999999999999876532  1    11 11 68999999999996421            1


Q ss_pred             HHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHH
Q 030337          122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK  157 (179)
Q Consensus       122 ~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~  157 (179)
                      .+....+.+..+. ++ .+||+++.|++++++.+..
T Consensus        64 ~~~~~~~~~~~g~-~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           64 TKKWVEFFKKQGK-RV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HHHHHHHHHHTTC-CE-EECCTTSCHHHHHHHHCCC
T ss_pred             HHHHHHHHHHcCC-eE-EEECCCCcCHHHHHHHHHH
Confidence            1222334445576 56 9999999999998877654

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.02  E-value=5.6e-05  Score=59.00  Aligned_cols=83  Identities=22%  Similarity=0.242  Sum_probs=56.3

Q ss_pred             cccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHH---HHH
Q 030337           56 SYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL---RKL  131 (179)
Q Consensus        56 ~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~---~~~  131 (179)
                      ...++|.+++|... +|. +...+ +.++......  +.|++||.||+|+.+..            ..+....+   ...
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i-~r~L~~a~~~--~~~~iivlNK~DL~~~~------------~~~~~~~~~~~y~~  190 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNII-DRYLVGCETL--QVEPLIVLNKIDLLDDE------------GMDFVNEQMDIYRN  190 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHH-HHHHHHHHHH--TCEEEEEEECGGGCCHH------------HHHHHHHHHHHHHT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHH-HHHHHHHHhc--CCCEEEEEECccCCCch------------hHHHHHHHHHHHHh
Confidence            47899999988665 565 44444 6665544443  68889999999996522            11112333   345


Q ss_pred             hCCCeEEEeccCCCCcHHHHHHHH
Q 030337          132 IGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus       132 ~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .|. +.+.+||.++.|++++...+
T Consensus       191 ~G~-~v~~~Sa~~~~gl~~L~~~~  213 (358)
T 2rcn_A          191 IGY-RVLMVSSHTQDGLKPLEEAL  213 (358)
T ss_dssp             TTC-CEEECBTTTTBTHHHHHHHH
T ss_pred             CCC-cEEEEecCCCcCHHHHHHhc
Confidence            677 78999999999999877643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.98  E-value=2.3e-05  Score=60.72  Aligned_cols=103  Identities=16%  Similarity=0.169  Sum_probs=62.8

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +.+.|+||+|...-.   ......+|.+++++|.......+.+ ....   .    ..|.+++.||+|+.....      
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i-~~~i---~----~~~~ivvlNK~Dl~~~~~------  210 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGI-KKGI---F----ELADMIAVNKADDGDGER------  210 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------C-CTTH---H----HHCSEEEEECCSTTCCHH------
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHH-HHHH---h----ccccEEEEEchhccCchh------
Confidence            578999999974321   1235789999999998754432222 1111   1    245677779999743211      


Q ss_pred             CCccccHHHHHHHHHHh---C------CCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLI---G------SPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~---~------~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                          .+......+....   .      .++++.+||+++.|++++++.+.+..
T Consensus       211 ----~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~  259 (337)
T 2qm8_A          211 ----RASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  259 (337)
T ss_dssp             ----HHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence                2222333333321   1      24688999999999999999988754

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.20  E-value=0.0058  Score=47.96  Aligned_cols=104  Identities=8%  Similarity=0.002  Sum_probs=59.0

Q ss_pred             eEEEECCeEEEEEEEeCCCCcccccc-------CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEE
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNRL-------RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVG   99 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~   99 (179)
                      -.+.+++  .++++.||||.-...+.       ....++.||++++|+|.++|..-......-+..+.......|.+++.
T Consensus       112 g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~  189 (376)
T 4a9a_A          112 GVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNKPLHHKQIIEKELEGVGIRLNKTPPDILI  189 (376)
T ss_dssp             EEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEETCCCCCEEE
T ss_pred             EEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccccCccHHHHHHHHHHHHHhhHhhccCChhhhh
Confidence            3455666  57899999996432221       11246789999999999998543322122222222222467888999


Q ss_pred             eCCCcccccccccCCCCCccccHHHHHHHHHHhCC
Q 030337          100 TKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS  134 (179)
Q Consensus       100 nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (179)
                      ||.|...-...  ........+.++...+...+.+
T Consensus       190 nK~d~~gi~i~--~~~~~~~l~~eeik~il~~~~l  222 (376)
T 4a9a_A          190 KKKEKGGISIT--NTVPLTHLGNDEIRAVMSEYRI  222 (376)
T ss_dssp             EECSSSCEEEE--ESSCCSSCCHHHHHHHHHHTTC
T ss_pred             hHhhhhhhhhh--cchhhhhccHHHHHHHHHHhcc
Confidence            99997532210  0111122455566666665554

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=96.80  E-value=0.00023  Score=56.21  Aligned_cols=39  Identities=13%  Similarity=-0.026  Sum_probs=23.8

Q ss_pred             EEEEEEeCCCCccccc-------cCcccccCccEEEEEEeCCChhh
Q 030337           36 VNLGLWDTAGQEDYNR-------LRPLSYRGADVFILAFSLISKAS   74 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~-------~~~~~~~~~~~~i~v~d~~~~~s   74 (179)
                      ..+++|||||...+.+       .+..+++++|++++|+|+++..+
T Consensus        86 ~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A           86 AFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             CEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             cccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCCcc
Confidence            3699999999877554       33456889999999999986544

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.64  E-value=0.0083  Score=48.88  Aligned_cols=102  Identities=15%  Similarity=0.096  Sum_probs=61.2

Q ss_pred             EEEEEEeCCCCccccc-cCcc---c--ccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcE-EEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQEDYNR-LRPL---S--YRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI-ILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~-~~~~---~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pi-ilv~nK~D~~~~~  108 (179)
                      +.+.|+||+|...... ++..   .  +-.++.+++|+|.+......    .....+.+   ..|+ .+|.||.|.....
T Consensus       184 ~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~----~~a~~~~~---~~~i~gvVlNK~D~~~~~  256 (504)
T 2j37_W          184 FEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE----AQAKAFKD---KVDVASVIVTKLDGHAKG  256 (504)
T ss_dssp             CCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH----HHHHHHHH---HHCCCCEEEECTTSCCCC
T ss_pred             CcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH----HHHHHHHh---hcCceEEEEeCCccccch
Confidence            5788999999754221 1110   1  22789999999998754321    11222322   2575 8899999986422


Q ss_pred             ccccCCCCCccccHHHHHHHHHHhCCC-----------------eEEEeccCCCCc-HHHHHHHHHHH
Q 030337          109 QFFIDHPGAVPITTAQGEELRKLIGSP-----------------AYIECSSKTQQN-VKAVFDAAIKV  158 (179)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~e~Sa~~~~~-i~~~f~~l~~~  158 (179)
                      .              .+.......+.+                 +...+|+..|.| +.++++++...
T Consensus       257 g--------------~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          257 G--------------GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             T--------------HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             H--------------HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            1              122233344431                 122379999998 99998888765

>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=91.69  E-value=0.28  Score=34.18  Aligned_cols=65  Identities=11%  Similarity=0.016  Sum_probs=45.3

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC---CCCcEEEEEeCCCcc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA---PGVPIILVGTKLDLR  105 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~D~~  105 (179)
                      +.+.|.|+++..  .......+..+|.++++...+...  ..+ ..+++.++...   ++.++.+|.|+.|..
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSA-AGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHH-HHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHH-HHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            567899999875  223345567799999999876554  555 45666665442   367889999999853

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=88.56  E-value=0.61  Score=37.31  Aligned_cols=91  Identities=14%  Similarity=0.037  Sum_probs=52.1

Q ss_pred             EEEEEEeCCCCccccccCc------ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRP------LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQ  109 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~------~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~  109 (179)
                      +.+.|.||+|........-      .....++.+++|.|.+....-.+.    ...+.+.  -.+..+|.||.|....  
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~----a~~f~~~--~~i~gVIlTKlD~~~~--  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ----ALAFKEA--TPIGSIIVTKLDGSAK--  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH----HHHHHHS--CTTEEEEEECCSSCSS--
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH----HHHHHhh--CCCeEEEEECCCCccc--
Confidence            5678999999643221000      112357899999998864332222    2233322  2345688999998542  


Q ss_pred             cccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337          110 FFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                                  ...+.......+. ++..++.  |++++
T Consensus       255 ------------gG~~ls~~~~~g~-PI~fig~--Ge~vd  279 (443)
T 3dm5_A          255 ------------GGGALSAVAATGA-PIKFIGT--GEKID  279 (443)
T ss_dssp             ------------HHHHHHHHHTTCC-CEEEEEC--SSSTT
T ss_pred             ------------ccHHHHHHHHHCC-CEEEEEc--CCChH
Confidence                        2345556666777 5666654  55443

>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=86.07  E-value=1.5  Score=31.90  Aligned_cols=65  Identities=18%  Similarity=0.116  Sum_probs=46.1

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      +.+.|.|+++.-.  ......+..+|.+|++...+ ..+...+ ..+.+.++....+.++.+|.|+.+.
T Consensus       145 yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~-~~s~~~~-~~~~~~l~~~~~~~~~~vv~N~~~~  209 (267)
T 3k9g_A          145 YDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAE-KWAVESL-DLFNFFVRKLNLFLPIFLIITRFKK  209 (267)
T ss_dssp             CSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESC-TTHHHHH-HHHHHHHHTTTCCCCEEEEEEEECT
T ss_pred             CCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCC-hHHHHHH-HHHHHHHHHHhccCCEEEEEecccC
Confidence            5678999988542  22334566799999999874 5566666 5666777666556788899999943

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=84.46  E-value=0.068  Score=41.67  Aligned_cols=67  Identities=7%  Similarity=0.016  Sum_probs=39.3

Q ss_pred             EEEEeCCCCcccccc----Ccc---cc---cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           38 LGLWDTAGQEDYNRL----RPL---SY---RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        38 ~~i~D~~G~~~~~~~----~~~---~~---~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      +.+.||||-.....+    ...   .+   +..+.++++.+....--+..+ . .+..+..  .+.|++++.||.|..+.
T Consensus       214 ~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l-~-~l~~l~~--~~~~~~~v~~k~d~~~~  289 (369)
T 3ec1_A          214 ATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGL-A-RLDYIKG--GRRSFVCYMANELTVHR  289 (369)
T ss_dssp             CEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTT-E-EEEEEES--SSEEEEEEECTTSCEEE
T ss_pred             eEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCE-E-EEEEccC--CCceEEEEecCCccccc
Confidence            789999996432211    111   12   678899999987433222222 1 1111111  36899999999999764


Q ss_pred             c
Q 030337          108 K  108 (179)
Q Consensus       108 ~  108 (179)
                      .
T Consensus       290 ~  290 (369)
T 3ec1_A          290 T  290 (369)
T ss_dssp             E
T ss_pred             c
Confidence            4

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=84.26  E-value=5.4  Score=27.95  Aligned_cols=65  Identities=14%  Similarity=0.053  Sum_probs=44.7

Q ss_pred             EEEEEEeCCCC-ccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           36 VNLGLWDTAGQ-EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        36 ~~~~i~D~~G~-~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      +.+.|.|+++. ...  .....+..+|.+|++...+ +.+...+ ..+++.++... +.++.+|.|+.|..
T Consensus        68 yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~-~~~~~~l~~~~-~~~~~vv~N~~~~~  133 (209)
T 3cwq_A           68 YQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDAL-MLTIETLQKLG-NNRFRILLTIIPPY  133 (209)
T ss_dssp             CSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHH-HHHHHHHHHTC-SSSEEEEECSBCCT
T ss_pred             CCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHH-HHHHHHHHhcc-CCCEEEEEEecCCc
Confidence            55779999886 332  2234567899999998865 5566665 55666666532 46788999999864

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=83.78  E-value=9.4  Score=26.97  Aligned_cols=67  Identities=10%  Similarity=0.072  Sum_probs=47.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLR  105 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~  105 (179)
                      .+.+.|.|+++...  ......+..+|.+|++...+ ..+...+ ..+++.++... +...+-+|.|+.+..
T Consensus       118 ~yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~-~~~~~~~-~~~~~~l~~~~~~~~~~~~v~N~~~~~  185 (245)
T 3ea0_A          118 FYDYIIVDFGASID--HVGVWVLEHLDELCIVTTPS-LQSLRRA-GQLLKLCKEFEKPISRIEIILNRADTN  185 (245)
T ss_dssp             HCSEEEEEEESSCC--TTHHHHGGGCSEEEEEECSS-HHHHHHH-HHHHHHHHTCSSCCSCEEEEEESTTSC
T ss_pred             hCCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecCc-HHHHHHH-HHHHHHHHHhCCCccceEEEEecCCCC
Confidence            35678999988542  23334577899999998865 6677777 67777776654 245678999999864

>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=82.52  E-value=0.95  Score=35.58  Aligned_cols=36  Identities=17%  Similarity=0.115  Sum_probs=25.9

Q ss_pred             EEEEEEeCCCCcccc-------ccCcccccCccEEEEEEeCCC
Q 030337           36 VNLGLWDTAGQEDYN-------RLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~-------~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      ..+.+||++|.....       ..+...++.+|+++.|+|+.+
T Consensus        85 ~~i~lvD~pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           85 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cceEEEeccccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            368999999954322       223345689999999999874

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=82.26  E-value=4.9  Score=30.14  Aligned_cols=90  Identities=13%  Similarity=0.079  Sum_probs=53.8

Q ss_pred             EEEEEEeCCCCcc--ccc-cCc-----ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCccc
Q 030337           36 VNLGLWDTAGQED--YNR-LRP-----LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRD  106 (179)
Q Consensus        36 ~~~~i~D~~G~~~--~~~-~~~-----~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~  106 (179)
                      +.+.|.||||...  ... +..     .....++.+++|.|.+...   +. ......+.+   ..| ..+|.||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~-~~~~~~~~~---~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KA-YDLASKFNQ---ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GH-HHHHHHHHH---TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HH-HHHHHHHHh---hCCCCEEEEeCCCCCc
Confidence            5688999999866  211 110     1234689999999987432   22 112223322   356 678899999743


Q ss_pred             ccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337          107 DKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                                    ....+..+....+. ++..++  .|++++
T Consensus       254 --------------~~g~~~~~~~~~~~-pi~~i~--~Ge~v~  279 (297)
T 1j8m_F          254 --------------KGGGALSAVAATGA-TIKFIG--TGEKID  279 (297)
T ss_dssp             --------------THHHHHHHHHTTTC-CEEEEE--CSSSTT
T ss_pred             --------------chHHHHHHHHHHCc-CEEEEe--CCCChh
Confidence                          22345567777787 666665  566664

---

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	179
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-33
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-27
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	3e-27
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	1e-26
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-25
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-24
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-24
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	1e-23
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-23
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-22
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-21
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-20
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	3e-20
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	3e-20
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-19
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	9e-19
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-18
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-18
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	7e-18
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-16
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	3e-14
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	7e-14
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	8e-14
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	8e-14
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-13
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	5e-13
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	7e-13
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	3e-11
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	3e-11
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	3e-11
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	7e-11
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-10
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-10
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-10
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	6e-09
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	7e-09
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-08
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-08
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-08
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-07
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	3e-07
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	5e-07
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	5e-07
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	9e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	6e-06
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-05
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-05
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	3e-05
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-04
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-04
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	2e-04
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-04
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	0.001

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 1e-33
 Identities = 80/178 (44%), Positives = 118/178 (66%), Gaps = 9/178 (5%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+  K   +YVPTVFDN++  V++ G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 19  LLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVF 78

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQF--FIDHPGAVPIT 121
           ++ FS++S +S+ENV +KW+PE+ H+ P  P +LVGT++DLRDD      +      PIT
Sbjct: 79  LVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT 138

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHRACSIL 179
               E+L + + +  Y+ECS+ TQ+ +K VFD AI   L+PP+ KK ++     C +L
Sbjct: 139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPKKSRR-----CVLL 191

>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 = 99.7 bits (247), Expect = 2e-27
 Identities = 92/151 (60%), Positives = 111/151 (73%), Gaps = 2/151 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +Y+PTVFDN+SANV+VDG  VNLGLWDTAGQEDY+RLRPLSY   DV ++ FSL+S AS
Sbjct: 32  GEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPAS 91

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLI 132
           +ENV  KW PE+RH+ P  PIILVGTKLDLRDDK     +      PIT  QG  + K I
Sbjct: 92  FENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEI 151

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPP 163
           G+  Y+ECS+ TQ+ +K VFD AI+ VL PP
Sbjct: 152 GAVKYLECSALTQRGLKTVFDEAIRAVLCPP 182

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.3 bits (246), Expect = 3e-27
 Identities = 77/161 (47%), Positives = 115/161 (71%), Gaps = 4/161 (2%)

Query: 6   IICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
           ++ +Y+     ++YVPTVFD+++ +V V G    LGL+DTAGQEDY+RLRPLSY   DVF
Sbjct: 25  LLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF 84

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPIT 121
           ++ FS+++ AS++NV ++W+PEL+ YAP VP +L+GT++DLRDD +    ++     PI 
Sbjct: 85  LICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPIC 144

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP 162
             QG++L K IG+  Y+ECS+ TQ+ +K VFD AI  +L P
Sbjct: 145 VEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILTP 185

>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 = 97.2 bits (241), Expect = 1e-26
 Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 13/148 (8%)

Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+  +F    V ++G  V L +WDTAGQE +  +    YRGA   IL + +  + 
Sbjct: 29  PSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDER 88

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           ++ N+ + +     H      ++LVG K D+                T  QGE L K +G
Sbjct: 89  TFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVV-----------TADQGEALAKELG 137

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            P +IE S+K   NV  +F    K++ +
Sbjct: 138 IP-FIESSAKNDDNVNEIFFTLAKLIQE 164

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 94.7 bits (234), Expect = 1e-25
 Identities = 71/149 (47%), Positives = 99/149 (66%), Gaps = 2/149 (1%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + YVPTVF+N+ A++ VDG  V L LWDTAG EDY+RLRPLSY   DV ++ FS+ S  S
Sbjct: 29  EVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDS 88

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH--PGAVPITTAQGEELRKLI 132
            EN+ +KW PE++H+ P VPIILVG K DLR+D+    +       P+   +G ++   I
Sbjct: 89  LENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRI 148

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G+  Y+ECS+KT+  V+ VF+ A +  LQ
Sbjct: 149 GAFGYMECSAKTKDGVREVFEMATRAALQ 177

>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 = 92.6 bits (229), Expect = 1e-24
 Identities = 39/161 (24%), Positives = 67/161 (41%), Gaps = 12/161 (7%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
            DY+ T+  +F    V +DG TV L +WDTAGQE +  +    YRG+   I+ + +  + 
Sbjct: 33  NDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQE 92

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S+  V        R+    V  +LVG K DL+D +    D                    
Sbjct: 93  SFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKM--------- 143

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKSHR 174
              ++E S+    NV+  F    + + +   Q+   + + +
Sbjct: 144 --PFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQK 182

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 91.6 bits (226), Expect = 2e-24
 Identities = 52/150 (34%), Positives = 86/150 (57%), Gaps = 3/150 (2%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           ++YVPTVF+N++A+  +D   + L LWDT+G   Y+ +RPLSY  +D  ++ F +    +
Sbjct: 29  ENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPET 88

Query: 75  YENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP--GAVPITTAQGEELRKLI 132
            ++V KKW  E++ + P   ++LVG K DLR D    ++       P++  QG  + K I
Sbjct: 89  LDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQI 148

Query: 133 GSPAYIECSSKTQQN-VKAVFDAAIKVVLQ 161
           G+  YIECS+   +N V+ +F  A    + 
Sbjct: 149 GAATYIECSALQSENSVRDIFHVATLACVN 178

>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 = 89.5 bits (221), Expect = 1e-23
 Identities = 35/149 (23%), Positives = 70/149 (46%), Gaps = 13/149 (8%)

Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
                T+  +F    V ++G  V L +WDTAGQE +  +    YR A+  IL + +  + 
Sbjct: 32  PGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEE 91

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S+  + +      ++ +  V  +LVG K+DL + ++             ++ +++     
Sbjct: 92  SFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQR----AEEFSEAQDM----- 142

Query: 134 SPAYIECSSKTQQNVKAVF-DAAIKVVLQ 161
              Y+E S+K   NV+ +F D A +++ +
Sbjct: 143 --YYLETSAKESDNVEKLFLDLACRLISE 169

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 89.0 bits (220), Expect = 2e-23
 Identities = 36/148 (24%), Positives = 68/148 (45%), Gaps = 12/148 (8%)

Query: 15  QDYVPTVFDNFSA-NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             ++ T+  +F    + +DG  + L +WDTAGQE +  +    YRGA   +L + + ++ 
Sbjct: 33  STFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEK 92

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S++N+         H +  V  +++G K D+ D +Q              +GE+L    G
Sbjct: 93  SFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS----------KERGEKLALDYG 142

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
              ++E S+K   NV+  F    + +  
Sbjct: 143 IK-FMETSAKANINVENAFFTLARDIKA 169

>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 = 86.5 bits (213), Expect = 2e-22
 Identities = 41/165 (24%), Positives = 66/165 (40%), Gaps = 11/165 (6%)

Query: 3   FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADV 62
            +          +       +  + ++ VDG T+   +WDTAGQE Y R+    YRGA  
Sbjct: 20  LLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVG 79

Query: 63  FILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT 122
            +L + +    +YENV +       H    + I+LVG K DLR  +    D   A     
Sbjct: 80  ALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKN 139

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
                        ++IE S+    NV+  F   +  + +   QK+
Sbjct: 140 N-----------LSFIETSALDSTNVEEAFKNILTEIYRIVSQKQ 173

>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 = 83.8 bits (206), Expect = 2e-21
 Identities = 33/155 (21%), Positives = 64/155 (41%), Gaps = 11/155 (7%)

Query: 3   FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADV 62
            ++                 +  +  + V G  + L +WDTAGQE +  +    YRGA  
Sbjct: 20  LLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG 79

Query: 63  FILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT 122
            ++ + +  +++Y +++           P   IIL+G K DL   +    +         
Sbjct: 80  ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYE--------- 130

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK 157
            + ++  +  G   ++E S+KT +NV+  F  A K
Sbjct: 131 -EAKQFAEENGLL-FLEASAKTGENVEDAFLEAAK 163

>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 = 81.5 bits (200), Expect = 1e-20
 Identities = 35/140 (25%), Positives = 60/140 (42%), Gaps = 11/140 (7%)

Query: 22  FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK 81
            D     +  +   + L +WDTAGQE Y  +    YRGA  FIL + + ++ S+  V   
Sbjct: 40  IDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDW 99

Query: 82  WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
                 +      ++LVG K D+ D++    +             +L   +G   + E S
Sbjct: 100 STQIKTYSWDNAQVLLVGNKCDMEDERVVSSERG----------RQLADHLGFE-FFEAS 148

Query: 142 SKTQQNVKAVFDAAIKVVLQ 161
           +K   NVK  F+  + V+ +
Sbjct: 149 AKDNINVKQTFERLVDVICE 168

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 81.1 bits (199), Expect = 3e-20
 Identities = 46/164 (28%), Positives = 69/164 (42%), Gaps = 23/164 (14%)

Query: 15  QDYVPTVFDNFSANVVV-----------DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVF 63
             ++ TV  +F    VV               V+L LWDTAGQE +  L    +R A  F
Sbjct: 32  PKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGF 91

Query: 64  ILAFSLISKASYENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITT 122
           +L F L S+ S+ NV         +       I+L+G K DL D ++             
Sbjct: 92  LLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVN----------E 141

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQK 166
            Q  EL    G P Y E S+ T QNV+   +  + ++++  +Q 
Sbjct: 142 RQARELADKYGIP-YFETSAATGQNVEKAVETLLDLIMKRMEQC 184

>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 = 80.7 bits (198), Expect = 3e-20
 Identities = 43/160 (26%), Positives = 75/160 (46%), Gaps = 12/160 (7%)

Query: 3   FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGAD 61
            +    + +     ++ TV  +F +  + VDG  V L +WDTAGQE +  +    YR A 
Sbjct: 22  LLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAH 81

Query: 62  VFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPIT 121
             +L + + +KAS++N+         +    V ++L+G K+D   ++           + 
Sbjct: 82  ALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER----------VVK 131

Query: 122 TAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
              GE+L K  G P ++E S+KT  NV   F A  K + +
Sbjct: 132 REDGEKLAKEYGLP-FMETSAKTGLNVDLAFTAIAKELKR 170

>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 = 78.4 bits (192), Expect = 2e-19
 Identities = 38/165 (23%), Positives = 64/165 (38%), Gaps = 11/165 (6%)

Query: 3   FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADV 62
            ++                 +  S  + V G  V L +WDTAGQE +  +    YRGA  
Sbjct: 21  LLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG 80

Query: 63  FILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT 122
            +L + + S+ +Y  +           +  + IIL G K DL  D++             
Sbjct: 81  ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRF---- 136

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
           AQ  EL        ++E S+ T +NV+  F    + +L   +  +
Sbjct: 137 AQENEL-------MFLETSALTGENVEEAFVQCARKILNKIESGE 174

>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 = 76.8 bits (188), Expect = 9e-19
 Identities = 38/152 (25%), Positives = 69/152 (45%), Gaps = 12/152 (7%)

Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             +  T+   F A +V +DG  + L +WDTAGQE +  +    YRGA   +L + +  + 
Sbjct: 30  PVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRE 89

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           ++ ++        +H +  + I+L+G K DL   +    +           GE   +  G
Sbjct: 90  TFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREE----------GEAFAREHG 139

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQ 165
              ++E S+KT  NV+  F    K + +  +Q
Sbjct: 140 LI-FMETSAKTACNVEEAFINTAKEIYRKIQQ 170

>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 = 76.4 bits (187), Expect = 1e-18
 Identities = 30/161 (18%), Positives = 65/161 (40%), Gaps = 11/161 (6%)

Query: 3   FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADV 62
            +    + +   +       D     + VDG+   L +WDTAGQE +  L P  YRGA  
Sbjct: 23  LLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG 82

Query: 63  FILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITT 122
            IL + +  + ++  +         +      + ++      +++++          +  
Sbjct: 83  VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE----------VDR 132

Query: 123 AQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPP 163
            +G +  +      +IE S+KT   V+  F+  ++ ++Q P
Sbjct: 133 NEGLKFARKHSML-FIEASAKTCDGVQCAFEELVEKIIQTP 172

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 75.3 bits (184), Expect = 4e-18
 Identities = 40/144 (27%), Positives = 72/144 (50%), Gaps = 12/144 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D +   + VD S   L + DTAG E +  +R L  +    FIL +SL+++ S
Sbjct: 30  EKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQS 89

Query: 75  YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           ++++       +R      VP+ILVG K+DL  +++              +G  L +  G
Sbjct: 90  FQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSS----------EGRALAEEWG 139

Query: 134 SPAYIECSSKTQQNVKAVFDAAIK 157
            P ++E S+K++  V  +F   ++
Sbjct: 140 CP-FMETSAKSKTMVDELFAEIVR 162

>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 = 74.2 bits (181), Expect = 7e-18
 Identities = 39/144 (27%), Positives = 61/144 (42%), Gaps = 12/144 (8%)

Query: 15  QDYVPTVFDNFSANVVV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y  T+  +F +  +  +  T+ L LWDTAGQE +  L P   R +   ++ + + +  
Sbjct: 27  NTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVN 86

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           S++   K            V I+LVG K DL D +Q  I+            E   K + 
Sbjct: 87  SFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEG----------ERKAKELN 136

Query: 134 SPAYIECSSKTQQNVKAVFDAAIK 157
              +IE S+K   NVK +F     
Sbjct: 137 VM-FIETSAKAGYNVKQLFRRVAA 159

>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 = 70.8 bits (172), Expect = 2e-16
 Identities = 45/153 (29%), Positives = 72/153 (47%), Gaps = 18/153 (11%)

Query: 15  QDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
                T+   F    + VDG  V + +WDTAGQE +  LR   YRG+D  +L FS+    
Sbjct: 33  TQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQ 92

Query: 74  SYENVAKKWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
           S++N+   W  E  +YA        P +++G K+D+ + +            +T + +  
Sbjct: 93  SFQNL-SNWKKEFIYYADVKEPESFPFVILGNKIDISERQV-----------STEEAQAW 140

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            +  G   Y E S+K   NV A F+ A++ VL 
Sbjct: 141 CRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.1 bits (157), Expect = 3e-14
 Identities = 42/152 (27%), Positives = 66/152 (43%), Gaps = 12/152 (7%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY PT+ D+++    VDG    L + DTAGQE++  +R    R    F+L F++  + S
Sbjct: 33  SDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQS 92

Query: 75  YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +  V K +   LR       P++LVG K DL   +Q                        
Sbjct: 93  FNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEA----------SAFGASHH 142

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQ 165
              Y E S+K + NV   F+  ++ V +  +Q
Sbjct: 143 VA-YFEASAKLRLNVDEAFEQLVRAVRKYQEQ 173

>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 = 63.9 bits (154), Expect = 7e-14
 Identities = 35/127 (27%), Positives = 56/127 (44%), Gaps = 11/127 (8%)

Query: 35  TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP 94
           TV   +WDTAGQE Y+ L P+ YRGA   I+ + + ++ S+           R  +P + 
Sbjct: 54  TVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIV 113

Query: 95  IILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDA 154
           I L G K DL + +               + +          ++E S+KT  NV  +F A
Sbjct: 114 IALSGNKADLANKRAV----------DFQEAQSYADDNSLL-FMETSAKTSMNVNEIFMA 162

Query: 155 AIKVVLQ 161
             K + +
Sbjct: 163 IAKKLPK 169

>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 = 63.8 bits (154), Expect = 8e-14
 Identities = 31/129 (24%), Positives = 61/129 (47%), Gaps = 11/129 (8%)

Query: 33  GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPG 92
           G  VNL +WDTAGQE ++ L P+ YR ++  IL + +  + S++ V        +     
Sbjct: 49  GKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNE 108

Query: 93  VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF 152
           + + +VG K+DL  ++   I             E   + +G+  +   S+K  + ++ +F
Sbjct: 109 ICLCIVGNKIDLEKERHVSIQEA----------ESYAESVGAK-HYHTSAKQNKGIEELF 157

Query: 153 DAAIKVVLQ 161
               K +++
Sbjct: 158 LDLCKRMIE 166

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 63.8 bits (154), Expect = 8e-14
 Identities = 43/148 (29%), Positives = 69/148 (46%), Gaps = 14/148 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           +DY PT  D++   VV+DG  V + + DTAGQEDY  +R   +R  + F+  FS I++  
Sbjct: 31  EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFS-ITEME 89

Query: 75  YENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
                  +  ++        VP +LVG K DL D +Q           +  + +      
Sbjct: 90  SFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV----------SVEEAKNRADQW 139

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVL 160
               Y+E S+KT+ NV  VF   ++ + 
Sbjct: 140 NVN-YVETSAKTRANVDKVFFDLMREIR 166

>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 = 62.3 bits (150), Expect = 3e-13
 Identities = 45/149 (30%), Positives = 79/149 (53%), Gaps = 15/149 (10%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +Y PT+ D++   VV+DG T  L + DTAGQE+Y+ +R    R  + F+  F++ +  S
Sbjct: 30  DEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKS 89

Query: 75  YENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
           +E++  ++  +++       VP++LVG K DL                 + Q ++L +  
Sbjct: 90  FEDI-HQYREQIKRVKDSDDVPMVLVGNKCDLAARTV-----------ESRQAQDLARSY 137

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
           G P YIE S+KT+Q V+  F   ++ + Q
Sbjct: 138 GIP-YIETSAKTRQGVEDAFYTLVREIRQ 165

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.5 bits (148), Expect = 5e-13
 Identities = 37/144 (25%), Positives = 67/144 (46%), Gaps = 11/144 (7%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y PT+ D++   V VD     L + DTAG E +  +R L  +    F L +S+ ++++
Sbjct: 30  EKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQST 89

Query: 75  YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           + ++       LR      VP+ILVG             D      +   QG+ L +   
Sbjct: 90  FNDLQDLREQILRVKDTEDVPMILVGN----------KCDLEDERVVGKEQGQNLARQWC 139

Query: 134 SPAYIECSSKTQQNVKAVFDAAIK 157
           + A++E S+K++ NV  +F   ++
Sbjct: 140 NCAFLESSAKSKINVNEIFYDLVR 163

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 61.2 bits (147), Expect = 7e-13
 Identities = 40/153 (26%), Positives = 64/153 (41%), Gaps = 15/153 (9%)

Query: 15  QDYVPTVFDNFSANVVV--DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           Q Y  T+  +F    V         + +WDTAGQE +  L    YRGAD  +L + + + 
Sbjct: 29  QQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNA 88

Query: 73  ASYENVAKKWIPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
           +S+EN+       L H         P +++G K+D  + K+   +            +EL
Sbjct: 89  SSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEK---------SAQEL 139

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            K +G       S+K   NV   F+   +  LQ
Sbjct: 140 AKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 172

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (136), Expect = 3e-11
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 20/160 (12%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           + Y+PTV D +   +  D S   L + DT G   +  ++ LS      FIL +S+ S+ S
Sbjct: 29  ESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQS 88

Query: 75  YENVAKKW--IPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI 132
            E +   +  I E++     +PI+LVG K D    ++            +++ E L +  
Sbjct: 89  LEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREV----------QSSEAEALARTW 138

Query: 133 GSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKKS 172
               ++E S+K   NVK +F   + +        K++  S
Sbjct: 139 KCA-FMETSAKLNHNVKELFQELLNLE-------KRRTVS 170

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.0 bits (136), Expect = 3e-11
 Identities = 44/148 (29%), Positives = 74/148 (50%), Gaps = 12/148 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY PT+ D+++   V+D     L + DTAGQE++  +R    R  + F+L FS+  + S
Sbjct: 32  TDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGS 91

Query: 75  YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E + K     LR       P+IL+G K DL   +Q           T  +G++L + + 
Sbjct: 92  FEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQV----------TQEEGQQLARQLK 141

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
              Y+E S+K + NV   F   ++V+ +
Sbjct: 142 VT-YMEASAKIRMNVDQAFHELVRVIRK 168

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 57.0 bits (136), Expect = 3e-11
 Identities = 35/162 (21%), Positives = 64/162 (39%), Gaps = 16/162 (9%)

Query: 15  QDYVPTVFDNFSANVVVD-GSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
             Y  T+  +F    V+     V + +WDTAGQE +  L    YRGAD  +L F + +  
Sbjct: 29  NQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPN 88

Query: 74  SYENVAKKWIPELRHYAP----GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
           +++ +       L   +P      P +++G K+DL + +                 +   
Sbjct: 89  TFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKR-----------AQAWC 137

Query: 130 KLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKKK 171
               +  Y E S+K   NV+  F    +  L+   + +   +
Sbjct: 138 YSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 179

>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 = 55.8 bits (133), Expect = 7e-11
 Identities = 32/117 (27%), Positives = 51/117 (43%), Gaps = 8/117 (6%)

Query: 41  WDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGT 100
           WDTAGQE +  L P+ YR A   ++ + +    S+              +  + I LVG 
Sbjct: 57  WDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGN 116

Query: 101 KLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK 157
           K+D        +   G   +   +GE+L +  G   + E S+KT +NV  VF    +
Sbjct: 117 KID-------MLQEGGERKVAREEGEKLAEEKGLL-FFETSAKTGENVNDVFLGIGE 165

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.3 bits (129), Expect = 2e-10
 Identities = 45/149 (30%), Positives = 72/149 (48%), Gaps = 13/149 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            DY PT+ D++  +  +D     L + DTAGQE+++ +R    R  D F++ +S+  KAS
Sbjct: 31  PDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKAS 90

Query: 75  YENVAKKWIPELRHYAPGV-PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E+V +     LR       P+ILV  K+DL   ++   D            +E+     
Sbjct: 91  FEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQG----------KEMATKYN 140

Query: 134 SPAYIECSSKTQQ-NVKAVFDAAIKVVLQ 161
            P YIE S+K    NV   F   ++V+ Q
Sbjct: 141 IP-YIETSAKDPPLNVDKTFHDLVRVIRQ 168

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.2 bits (129), Expect = 3e-10
 Identities = 25/118 (21%), Positives = 51/118 (43%), Gaps = 11/118 (9%)

Query: 40  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVG 99
           +WDTAG E +  L P+ YRG+   I+ + +  + ++  +        +H  P + + + G
Sbjct: 57  IWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAG 116

Query: 100 TKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIK 157
            K DL D ++                ++    I +  ++E S+K   N+  +F    +
Sbjct: 117 NKCDLTDVREVMER----------DAKDYADSIHAI-FVETSAKNAININELFIEISR 163

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 53.9 bits (128), Expect = 4e-10
 Identities = 19/144 (13%), Positives = 41/144 (28%), Gaps = 7/144 (4%)

Query: 10  YSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
           Y L   + V T+         V+   ++  +WD  GQ+    L    ++     I     
Sbjct: 18  YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDS 77

Query: 70  ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
             +       ++ +  L        ++       +  +KQ   +   A  IT   G    
Sbjct: 78  NDRERVNEAREELMRMLAEDELRDAVL------LVFANKQDLPNAMNAAEITDKLGLHSL 131

Query: 130 KLIGSPAYIECSSKTQQNVKAVFD 153
           +           + +   +    D
Sbjct: 132 RHRNWY-IQATCATSGDGLYEGLD 154

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.8 bits (120), Expect = 6e-09
 Identities = 33/151 (21%), Positives = 58/151 (38%), Gaps = 15/151 (9%)

Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           + YV T+           +   +   +WDTAGQE +  LR   Y  A   I+ F  ++  
Sbjct: 30  KKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFD-VTSR 88

Query: 74  SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
                   W  +L      +PI+L G K+D++D K               + + L+    
Sbjct: 89  VTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVKAKSI------VFHRKKNLQ---- 138

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPK 164
              Y + S+K+  N +  F    + ++  P 
Sbjct: 139 ---YYDISAKSNYNFEKPFLWLARKLIGDPN 166

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.4 bits (119), Expect = 7e-09
 Identities = 35/156 (22%), Positives = 61/156 (39%), Gaps = 16/156 (10%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
           Q    T  + +   ++VDG T  + + + AG  D           AD  I  FSL  + S
Sbjct: 31  QVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAKF-----SGWADAVIFVFSLEDENS 85

Query: 75  YENVAK--KWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           ++ V++    +  LR     G+ + LVGT+  +       +          A+   L   
Sbjct: 86  FQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVV--------GDARARALCAD 137

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKK 167
           +   +Y E  +    NV  VF    + V+   KQ++
Sbjct: 138 MKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQ 173

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 50.0 bits (118), Expect = 1e-08
 Identities = 20/153 (13%), Positives = 42/153 (27%), Gaps = 12/153 (7%)

Query: 10  YSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
           Y     + V T     S    +  +     +WD  GQE         Y   +  I+    
Sbjct: 33  YQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDS 92

Query: 70  ISKASYENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
             +       ++    L H       +++   K D+++             I+       
Sbjct: 93  TDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT-------VAEISQFLKLTS 145

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDA---AIKV 158
            K         C + T + +    +     +K+
Sbjct: 146 IKDHQWH-IQACCALTGEGLCQGLEWMMSRLKI 177

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.9 bits (118), Expect = 1e-08
 Identities = 25/182 (13%), Positives = 46/182 (25%), Gaps = 29/182 (15%)

Query: 6   IICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFIL 65
            I    +     VPT           D  +V   + D  GQ    R     +      + 
Sbjct: 18  FIKQMRIIHGSGVPTTGIIE---YPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMF 74

Query: 66  AFSLISKASYENVA----------KKWIPELRHYA-PGVPIILVGT-------KLDLRDD 107
             +L         +            +   + +       +IL          K+     
Sbjct: 75  LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHL 134

Query: 108 KQFFIDHPGAVPITTA-------QGEELRKLIGSPAYI-ECSSKTQQNVKAVFDAAIKVV 159
             +F ++ G      A          +L        Y     +   +N++ VF A    +
Sbjct: 135 VDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTI 194

Query: 160 LQ 161
           LQ
Sbjct: 195 LQ 196

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 47.6 bits (112), Expect = 6e-08
 Identities = 21/124 (16%), Positives = 36/124 (29%), Gaps = 9/124 (7%)

Query: 35  TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP-GV 93
              L +WD  GQ          +   D+ I       +  +E   ++    L       V
Sbjct: 59  GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCV 118

Query: 94  PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFD 153
           P+++   K DL            A  I         +         CS+ T + V+   +
Sbjct: 119 PVLIFANKQDLLTAAP-------ASEIAEGLNLHTIRDRVWQ-IQSCSALTGEGVQDGMN 170

Query: 154 AAIK 157
              K
Sbjct: 171 WVCK 174

>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 = 46.9 bits (110), Expect = 1e-07
 Identities = 22/144 (15%), Positives = 36/144 (25%), Gaps = 7/144 (4%)

Query: 10  YSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
           Y L     V T+         V    V   +WD  GQ+    L    Y G    I     
Sbjct: 30  YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDC 89

Query: 70  ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR 129
             +   +   ++    +        IIL+        +KQ   D      I    G    
Sbjct: 90  ADRDRIDEARQELHRIINDREMRDAIILIFA------NKQDLPDAMKPHEIQEKLGLTRI 143

Query: 130 KLIGSPAYIECSSKTQQNVKAVFD 153
           +           + +   +     
Sbjct: 144 RDRNWY-VQPSCATSGDGLYEGLT 166

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.9 bits (110), Expect = 2e-07
 Identities = 21/174 (12%), Positives = 43/174 (24%), Gaps = 29/174 (16%)

Query: 14  KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA 73
           K  +                  ++  ++D  GQ    +     + G    I   +L    
Sbjct: 23  KIIHEAGTGIVE---THFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYD 79

Query: 74  SYENV----------AKKWIPELRHYA-PGVPIILVGT-------KLDLRDDKQFFIDHP 115
                           K +     +       IIL          K+        + ++ 
Sbjct: 80  LVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYA 139

Query: 116 GAVPITTAQGEELRKLIGSPA--------YIECSSKTQQNVKAVFDAAIKVVLQ 161
           G+     A      +                   +   +NV+ VFDA   V+++
Sbjct: 140 GSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK 193

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.9 bits (107), Expect = 3e-07
 Identities = 40/140 (28%), Positives = 57/140 (40%), Gaps = 12/140 (8%)

Query: 22  FDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK 81
            D     + V+   V L LWDTAGQE+++ +    YRGA   +L FS   + S+E +   
Sbjct: 37  VDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAI-SS 95

Query: 82  WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECS 141
           W  ++      +P  LV          Q  ID      I   + E L K +    +   S
Sbjct: 96  WREKVVAEVGDIPTALV----------QNKIDLLDDSCIKNEEAEGLAKRLKLR-FYRTS 144

Query: 142 SKTQQNVKAVFDAAIKVVLQ 161
            K   NV  VF    +  LQ
Sbjct: 145 VKEDLNVSEVFKYLAEKHLQ 164

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.4 bits (106), Expect = 5e-07
 Identities = 37/144 (25%), Positives = 59/144 (40%), Gaps = 17/144 (11%)

Query: 15  QDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRL-RPLSYRGADVFILAFSLISK 72
                T+  +F    V +DG  + + LWDTAGQE + +      YR     +  + + + 
Sbjct: 29  DRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNM 88

Query: 73  ASYENVAKKWIPELRHY-APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
           AS+ ++        +H  A  +P ILVG K DLR   Q   D            ++    
Sbjct: 89  ASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTD----------LAQKFADT 138

Query: 132 IGSPAYIECSSKTQQ---NVKAVF 152
              P   E S+K      +V+A+F
Sbjct: 139 HSMP-LFETSAKNPNDNDHVEAIF 161

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 45.4 bits (106), Expect = 5e-07
 Identities = 22/150 (14%), Positives = 40/150 (26%), Gaps = 10/150 (6%)

Query: 14  KQDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 72
           +   V T       NV  +    + L +WD  GQ          Y      I       K
Sbjct: 38  QIGEVVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDK 97

Query: 73  ASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL 131
                 +K+    L+        +++   K D             A  ++        K 
Sbjct: 98  DRMSTASKELHLMLQEEELQDAALLVFANKQDQ-------PGALSASEVSKELNLVELKD 150

Query: 132 IGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
                 +  S+   + +    D  I V+ +
Sbjct: 151 RSWS-IVASSAIKGEGITEGLDWLIDVIKE 179

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.6 bits (104), Expect = 9e-07
 Identities = 40/149 (26%), Positives = 67/149 (44%), Gaps = 14/149 (9%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
            +Y PT+   +     +D   V++ + DTAGQED  + R    R  + F+L + +  + S
Sbjct: 29  WEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGS 87

Query: 75  YENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E V            P  V +ILVG K DL   +Q           +T +GE+L   + 
Sbjct: 88  FEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQV----------STEEGEKLATELA 137

Query: 134 SPAYIECSSKTQQ-NVKAVFDAAIKVVLQ 161
              + ECS+ T + N+  +F    + V +
Sbjct: 138 CA-FYECSACTGEGNITEIFYELCREVRR 165

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 42.4 bits (98), Expect = 6e-06
 Identities = 20/149 (13%), Positives = 43/149 (28%), Gaps = 5/149 (3%)

Query: 10  YSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
           + L        V      +  +  + +    +D  G     R+        +  +     
Sbjct: 31  HMLKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDC 90

Query: 70  ISKASYENVAKKWI-PELRHYAPGVPIILVGTKLDLRD--DKQFFIDHPGAVPITTAQGE 126
                     ++            VPI+++G K+D  +   ++   +  G    TT +G 
Sbjct: 91  ADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGS 150

Query: 127 ELRKLIGSPA--YIECSSKTQQNVKAVFD 153
              K + +       CS   +Q     F 
Sbjct: 151 VSLKELNARPLEVFMCSVLKRQGYGEGFR 179

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.2 bits (95), Expect = 1e-05
 Identities = 11/138 (7%), Positives = 29/138 (21%), Gaps = 3/138 (2%)

Query: 16  DYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY 75
              PT          +    +    +D  G     RL    +   +  +          +
Sbjct: 27  TLQPTWHPTS---EELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERF 83

Query: 76  ENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSP 135
           +    +               ++        +     +   A+ +    G +  +     
Sbjct: 84  DEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPV 143

Query: 136 AYIECSSKTQQNVKAVFD 153
               CS   +      F 
Sbjct: 144 EVFMCSVVMRNGYLEAFQ 161

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (94), Expect = 2e-05
 Identities = 31/163 (19%), Positives = 54/163 (33%), Gaps = 16/163 (9%)

Query: 1   MRFIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGA 60
             F      +     D      D +   ++VDG +  + L D    +  N          
Sbjct: 21  NIFAG---VHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQV 77

Query: 61  DVFILAFSLISKASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAV 118
               L    I+  +    A +   +LR       +PIILVG             D     
Sbjct: 78  GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGN----------KSDLVRCR 127

Query: 119 PITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ 161
            ++ ++G     +     +IE S+  Q NVK +F+  ++ V  
Sbjct: 128 EVSVSEGRACAVVFDCK-FIETSAAVQHNVKELFEGIVRQVRL 169

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (92), Expect = 3e-05
 Identities = 38/144 (26%), Positives = 65/144 (45%), Gaps = 12/144 (8%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
             Y PT+ + F+  + V+G   +L L DTAGQ++Y+          + +IL +S+ S  S
Sbjct: 31  DSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKS 90

Query: 75  YENVAKKWIPELRHYAP-GVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E +       L       +PI+LVG K DL  ++    +          +G+ L +   
Sbjct: 91  FEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE----------EGKALAESWN 140

Query: 134 SPAYIECSSKTQQNVKAVFDAAIK 157
           +  ++E S+K  Q    VF   I 
Sbjct: 141 AA-FLESSAKENQTAVDVFRRIIL 163

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 1e-04
 Identities = 18/161 (11%), Positives = 41/161 (25%), Gaps = 15/161 (9%)

Query: 10  YSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSL 69
           Y L   + V T+         V    +   +WD  G           Y   D  I     
Sbjct: 23  YRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDS 82

Query: 70  ISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEEL 128
             +        + +  L         +++   K D+            +  +  + G   
Sbjct: 83  CDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT-------SSEMANSLGLPA 135

Query: 129 RKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKK 169
            K        + S+     +    +  ++ +      K ++
Sbjct: 136 LKDRKWQ-IFKTSATKGTGLDEAMEWLVETL------KSRQ 169

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (86), Expect = 2e-04
 Identities = 34/157 (21%), Positives = 66/157 (42%), Gaps = 16/157 (10%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
                     +  ++VVDG   +L ++D   Q+    L        D +++ +S+  K S
Sbjct: 27  GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGS 86

Query: 75  YENVAKKWIPELRHYAPG-VPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIG 133
           +E  ++  +   R      VPIILVG K DL   ++  +D          +G     +  
Sbjct: 87  FEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVD----------EGRACAVVFD 136

Query: 134 SPAYIECSSKTQQNVKAVFDAAIKVVLQPPKQKKKKK 170
              +IE S+    NV+A+F+  ++ +    + ++  K
Sbjct: 137 CK-FIETSAALHHNVQALFEGVVRQI----RLRRDSK 168

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.0 bits (87), Expect = 2e-04
 Identities = 20/174 (11%), Positives = 42/174 (24%), Gaps = 30/174 (17%)

Query: 15  QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS 74
               PT   +       +   V   + D  GQ    +     +      +   S      
Sbjct: 26  HGQDPTKGIHE---YDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQ 82

Query: 75  YENVAKKWIPELRHYA-----------PGVPIILVGT-------KLDLRDDKQFFIDHPG 116
                ++                      V IIL          K+ +   K +F++  G
Sbjct: 83  VLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEG 142

Query: 117 AVPITTAQGEELRKLIGSPA---------YIECSSKTQQNVKAVFDAAIKVVLQ 161
                    + L +               +   ++   +N++ VF      +L 
Sbjct: 143 DPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH 196

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 37.7 bits (86), Expect = 3e-04
 Identities = 17/120 (14%), Positives = 35/120 (29%), Gaps = 11/120 (9%)

Query: 40  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHY-APGVPIILV 98
           +WD  GQ+         +   D  I       +   ++  ++    L      G  +++ 
Sbjct: 50  IWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIF 109

Query: 99  GTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPA-YIECSSKTQQNVKAVFDAAIK 157
             K DL                   +  EL  +         CS+ T +++    D  + 
Sbjct: 110 ANKQDLPGALS---------CNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLD 160

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 35.8 bits (81), Expect = 0.001
 Identities = 10/71 (14%), Positives = 21/71 (29%), Gaps = 8/71 (11%)

Query: 87  RHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ 146
           +    G+P++++G K DL               +         +          S K + 
Sbjct: 99  KPQLQGIPVLVLGNKRDL-------PGALDEKELIEKMNLSAIQDREIC-CYSISCKEKD 150

Query: 147 NVKAVFDAAIK 157
           N+       I+
Sbjct: 151 NIDITLQWLIQ 161

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	179
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.98
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.98
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.97
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.97
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.97
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.96
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.96
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.96
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.96
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.96
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.91
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.9
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.9
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.89
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.85
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.82
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.8
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.76
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.75
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.74
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.74
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.71
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.67
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.64
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.57
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.56
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.55
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.53
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.41
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.37
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.37
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.33
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.22
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.22
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.22
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.1
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.09
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.08
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.01
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.89
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.83
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.73
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.7
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.64
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.61
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.56
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.53
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.45
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.42
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.35
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.16
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.12
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.94
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.18
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.04
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	96.58
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.29
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	94.43
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	93.98
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	84.96
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	82.84

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-35  Score=212.72  Aligned_cols=172  Identities=46%  Similarity=0.832  Sum_probs=147.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+.+.|.+++.||+++.+.+....++..+.+++||++|+++|..++..++++++++++|||+++++||+++...|
T Consensus        18 Sli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~   97 (191)
T d2ngra_          18 CLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKW   97 (191)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCCCcCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHH
Confidence            57899999999999999999888888889999999999999999999999999999999999999999999999996667


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....++.|+++||||+|+.+.....  ......++++.+++..+++..+...|+||||++|.||+++|+.+++.++
T Consensus        98 ~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_          98 VPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             HHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            77777777889999999999997543211  1123445688999999999986558999999999999999999999998


Q ss_pred             CCchhhhhccCCCCCcccC
Q 030337          161 QPPKQKKKKKKSHRACSIL  179 (179)
Q Consensus       161 ~~~~~~~~~~~~~~~c~~~  179 (179)
                      ++.+++     ++.+|+||
T Consensus       178 ~~~~~k-----~~~~C~i~  191 (191)
T d2ngra_         178 EPPEPK-----KSRRCVLL  191 (191)
T ss_dssp             SCCSTT-----CCCSCCCC
T ss_pred             cCcCCC-----CCCCCeEC
Confidence            876542     34458887

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.9e-34  Score=204.80  Aligned_cols=160  Identities=48%  Similarity=0.873  Sum_probs=141.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||+++.+.+.+..++..+.+++||++|++.|..++..++++++++++|||+++++||+++...|
T Consensus        24 sLi~r~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~  103 (185)
T d2atxa1          24 CLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEW  103 (185)
T ss_dssp             HHHHHHHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHhhCCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHH
Confidence            57899999999999999999888888888999999999999999999999999999999999999999999999886778


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...++...+++|+++||||+|+.+.....  ......+.++.+++.++++.++...|+||||++|.||+++|+.++++++
T Consensus       104 ~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         104 VPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            88888777899999999999997643211  1223346789999999999998668999999999999999999999987


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      .+
T Consensus       184 ~P  185 (185)
T d2atxa1         184 TP  185 (185)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.9e-34  Score=202.64  Aligned_cols=159  Identities=45%  Similarity=0.827  Sum_probs=140.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+.+.||+++.+.+....+++.+.++|||++|++.|..+++.++++++++|+|||++++.||+++...|
T Consensus        17 sLi~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~   96 (177)
T d1kmqa_          17 CLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKW   96 (177)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCCCcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHH
Confidence            57899999999999999999888888889999999999999999999999999999999999999999999999986677


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....+++|++|||||+|+.+.....  ......+.++.+++..+++.++...|+||||++|.||+++|+.+++.++
T Consensus        97 ~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_          97 TPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             HHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            88888777889999999999997543211  0112334688899999999999779999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       177 ~  177 (177)
T d1kmqa_         177 Q  177 (177)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.2e-33  Score=194.31  Aligned_cols=146  Identities=29%  Similarity=0.385  Sum_probs=134.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||++..+.+.+.+++..+.+++||++|.+.+..++..++++++++|+|||++++.||+.+ ..|
T Consensus        19 sLl~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~~~   97 (167)
T d1xtqa1          19 SLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI-KVI   97 (167)
T ss_dssp             HHHHHHHHSCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCcccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhh-hhh
Confidence            5889999999999999999998989999999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..  .++|++|||||+|+..++          .++.+++.++++.+++ .|+||||++|.||+++|+.|++.+.
T Consensus        98 ~~~i~~~~~~~~~piilvgnK~Dl~~~r----------~v~~~~~~~~a~~~~~-~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1          98 HGKLLDMVGKVQIPIMLVGNKKDLHMER----------VISYEEGKALAESWNA-AFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHCSSCCCEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTC-EEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhcccccccceeeecccccccccc----------chhHHHHHHHHHHcCC-EEEEEecCCCCCHHHHHHHHHHHhc
Confidence            88876653  579999999999997654          3889999999999998 8999999999999999999998763

>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=100.00  E-value=5.9e-33  Score=197.07  Aligned_cols=159  Identities=33%  Similarity=0.665  Sum_probs=140.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.++|.||+++.+.+.+.++++.+.+++||++|++.+...++.++++++++|+|||+++++||+.+...|
T Consensus        17 sli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~   96 (179)
T d1m7ba_          17 ALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKW   96 (179)
T ss_dssp             HHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCCccCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHHHHHH
Confidence            58899999999999999999888888888999999999999999999999999999999999999999999999986677


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCc-HHHHHHHHHHHH
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQN-VKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~~f~~l~~~i  159 (179)
                      ...+....+++|++|||||+|+.......  ....+.++++.+++..+++..+...|+||||++|.| |+++|+.+++.+
T Consensus        97 ~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~  176 (179)
T d1m7ba_          97 KGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC  176 (179)
T ss_dssp             HHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHH
Confidence            77777777899999999999997533211  122455678999999999999877999999999985 999999999988


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      ++
T Consensus       177 l~  178 (179)
T d1m7ba_         177 VN  178 (179)
T ss_dssp             HT
T ss_pred             hc
Confidence            75

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.4e-33  Score=195.93  Aligned_cols=147  Identities=31%  Similarity=0.468  Sum_probs=135.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||+++.+.+.+..++..+.+++||++|++.+..+++.++++++++++|||++|++||+++ ..|
T Consensus        19 sll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~-~~~   97 (169)
T d1x1ra1          19 ALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHV-DRF   97 (169)
T ss_dssp             HHHHHHHHSSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCcccCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhhhcc-chh
Confidence            5789999999999999999999988888999999999999999999999999999999999999999999999998 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCC-cHHHHHHHHHHHH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ-NVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~-~i~~~f~~l~~~i  159 (179)
                      +..+.+..  .++|++++|||+|+...+          +++.+++.++++.+++ +|+|+||+++. ||+++|+.|++.+
T Consensus        98 ~~~i~~~~~~~~~p~ilvgnK~Dl~~~~----------~v~~e~~~~~~~~~~~-~~~e~Sak~~~~nV~~~F~~l~~~i  166 (169)
T d1x1ra1          98 HQLILRVKDRESFPMILVANKVDLMHLR----------KVTRDQGKEMATKYNI-PYIETSAKDPPLNVDKTFHDLVRVI  166 (169)
T ss_dssp             HHHHHHHHTSSCCCEEEEEECTTCSTTC----------CSCHHHHHHHHHHHTC-CEEEEBCSSSCBSHHHHHHHHHHHH
T ss_pred             hHHHHhhccccCccEEEEecccchhhhc----------eeehhhHHHHHHHcCC-EEEEEcCCCCCcCHHHHHHHHHHHH
Confidence            88877653  489999999999997654          4899999999999998 89999999875 9999999999988


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      .+
T Consensus       167 ~~  168 (169)
T d1x1ra1         167 RQ  168 (169)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=100.00  E-value=3.9e-33  Score=196.04  Aligned_cols=147  Identities=29%  Similarity=0.492  Sum_probs=132.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.++|.||+|+.+.+.+.+++..+.+.+||++|++.+..++..++++++++++|||++++.||+.+ ..|
T Consensus        19 sli~~~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   97 (168)
T d1u8za_          19 ALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAAT-ADF   97 (168)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCcccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhH-HHH
Confidence            5789999999999999999999988899999999999999999999999999999999999999999999999999 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ++.+.+..  +++|+++||||+|+.+.+          +++.++++.+++.+++ +++||||++|.||+++|++|++.+.
T Consensus        98 ~~~i~~~~~~~~~piiivgnK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~g~gv~e~f~~l~~~i~  166 (168)
T d1u8za_          98 REQILRVKEDENVPFLLVGNKSDLEDKR----------QVSVEEAKNRADQWNV-NYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             HHHHHHHHCCTTSCEEEEEECGGGGGGC----------CSCHHHHHHHHHHHTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCCCCCcEEEEeccccccccc----------cccHHHHHHHHHHcCC-eEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            98887653  589999999999997654          4889999999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       167 ~  167 (168)
T d1u8za_         167 A  167 (168)
T ss_dssp             T
T ss_pred             C
Confidence            3

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.5e-33  Score=193.74  Aligned_cols=147  Identities=31%  Similarity=0.462  Sum_probs=135.7

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.||++..+ .+....++..+.+.+|||+|++++..++..++++++++++|||++++.||+++ ..
T Consensus        17 sLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   95 (164)
T d1z2aa1          17 SMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAI-SS   95 (164)
T ss_dssp             HHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhc-cc
Confidence            57899999999999999999544 57788899999999999999999999999999999999999999999999998 79


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |++.+.+..+++|++|||||+|+..++.          ++.++++.+++.+++ +++|+||++|.||+++|+.|++.+++
T Consensus        96 ~~~~i~~~~~~~~iilVgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~Sak~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1          96 WREKVVAEVGDIPTALVQNKIDLLDDSC----------IKNEEAEGLAKRLKL-RFYRTSVKEDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             HHHHHHHHHCSCCEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-EEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             ccccccccCCCceEEEeeccCCccccee----------eeehhhHHHHHHcCC-EEEEeccCCCcCHHHHHHHHHHHHhC
Confidence            9999988878899999999999976553          888999999999998 89999999999999999999998875

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-32  Score=192.81  Aligned_cols=147  Identities=25%  Similarity=0.501  Sum_probs=127.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.||++..+. +.+..++..+.+++||++|++.+..++..++++++++|+|||+++++||+.+ ..
T Consensus        18 sLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~-~~   96 (167)
T d1z08a1          18 SLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKV-KN   96 (167)
T ss_dssp             HHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhh-hh
Confidence            588999999999999999996665 6777888999999999999999999999999999999999999999999999 77


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... ...|++|||||+|+..++.          ++.++++.+++.+++ +|+||||++|.||+++|++|++.++
T Consensus        97 ~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~----------v~~~e~~~~a~~~~~-~~~e~Sak~~~~v~e~F~~l~~~i~  165 (167)
T d1z08a1          97 WVKELRKMLGNEICLCIVGNKIDLEKERH----------VSIQEAESYAESVGA-KHYHTSAKQNKGIEELFLDLCKRMI  165 (167)
T ss_dssp             HHHHHHHHHGGGSEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhhhcccccccccceeeeccccccccccc----------cchHHHHHHHHHcCC-eEEEEecCCCcCHHHHHHHHHHHHh
Confidence            877776554 5789999999999977553          899999999999998 8999999999999999999999987


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       166 ~  166 (167)
T d1z08a1         166 E  166 (167)
T ss_dssp             C
T ss_pred             h
Confidence            6

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.1e-33  Score=195.54  Aligned_cols=147  Identities=29%  Similarity=0.469  Sum_probs=134.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||.++.+.+.+.+++..+.+.+||++|++++...+..++++++++|+|||++++.||+.+ ..|
T Consensus        21 sLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~~   99 (173)
T d2fn4a1          21 ALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEV-GKL   99 (173)
T ss_dssp             HHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeecccccccccchh-hhh
Confidence            5889999999999999999888889999999999999999999999999999999999999999999999999998 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..  .+.|++|||||+|+.....          +..+++..+++.+++ +|++|||++|.||+++|+.|++.+.
T Consensus       100 ~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak~g~gv~e~f~~l~~~i~  168 (173)
T d2fn4a1         100 FTQILRVKDRDDFPVVLVGNKADLESQRQ----------VPRSEASAFGASHHV-AYFEASAKLRLNVDEAFEQLVRAVR  168 (173)
T ss_dssp             HHHHHHHHTSSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hHHHHHHhccCCCceEEEEEeechhhccc----------cchhhhhHHHHhcCC-EEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            88776543  5899999999999976553          788899999999998 8999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       169 k  169 (173)
T d2fn4a1         169 K  169 (173)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.8e-32  Score=195.03  Aligned_cols=161  Identities=58%  Similarity=0.941  Sum_probs=140.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+.+.|.+++.||+++.+.+.+..++..+++.+||++|++.+..++..++++++++++|||++++.||+++...|
T Consensus        20 sli~~~~~~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~   99 (183)
T d1mh1a_          20 CLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKW   99 (183)
T ss_dssp             HHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             HHHHHHHhCCCCcccccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHH
Confidence            58899999999999999999888888999999999999999999999999999999999999999999999999996567


Q ss_pred             HHHHhhcCCCCcEEEEEeCCCcccccccc--cCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYAPGVPIILVGTKLDLRDDKQFF--IDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~~~~piilv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...++...+++|++|||||+|+..+....  ......+.....++..+++.++...|+||||++|.||+++|+.+++.++
T Consensus       100 ~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         100 YPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             HHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            88887777889999999999986543210  0112234467778899999998669999999999999999999999998


Q ss_pred             CCc
Q 030337          161 QPP  163 (179)
Q Consensus       161 ~~~  163 (179)
                      +++
T Consensus       180 ~pp  182 (183)
T d1mh1a_         180 CPP  182 (183)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-32  Score=193.21  Aligned_cols=146  Identities=23%  Similarity=0.360  Sum_probs=117.8

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|.+..|.+ +.||.++.+.+.+.++++.+.+.+||++|++.+..++..+++++|++|+|||++++.||+.+ ..|
T Consensus        16 sLi~~~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~-~~~   93 (168)
T d2gjsa1          16 ALARIFGGVEDGP-EAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKA-SEL   93 (168)
T ss_dssp             HHHHHHHTC----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHhCCccCC-cCCeeeeeecceeeccccccceeeeecccccccceecccchhhhhhhceecccccccccccc-ccc
Confidence            5788888877644 56788888888899999999999999999999999999999999999999999999999999 789


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+....  .++|+++||||+|+....          +++..+++++++.+++ +|+||||++|.||+++|++|++.+.
T Consensus        94 ~~~i~~~~~~~~~piilvgnK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~~~~v~~~f~~l~~~i~  162 (168)
T d2gjsa1          94 RVQLRRARQTDDVPIILVGNKSDLVRSR----------EVSVDEGRACAVVFDC-KFIETSAALHHNVQALFEGVVRQIR  162 (168)
T ss_dssp             HHHHHHHCC--CCCEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTS-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             cchhhcccccccceEEEeecccchhhhc----------chhHHHHHHHHHhcCC-EEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            88887655  478999999999997655          3888999999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       163 ~  163 (168)
T d2gjsa1         163 L  163 (168)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.98  E-value=2.1e-32  Score=191.95  Aligned_cols=147  Identities=26%  Similarity=0.462  Sum_probs=133.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+.+.|.++|.||+++.+.+.+..++..+.+++||++|++.+..+++.++++++++|+|||++++.||+++ ..|
T Consensus        18 sli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~-~~~   96 (167)
T d1c1ya_          18 ALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDL-QDL   96 (167)
T ss_dssp             HHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHcCCCCCccCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhH-HHH
Confidence            5899999999999999999998888888899999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..  +++|++|||||+|+.....          ++.+++..+++.++...|+||||++|.||+++|++|++++.
T Consensus        97 ~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_          97 REQILRVKDTEDVPMILVGNKCDLEDERV----------VGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCCeEEEEEEecCcccccc----------cchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            87776543  5899999999999987654          78888999998865449999999999999999999999875

>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=99.98  E-value=1.1e-32  Score=193.98  Aligned_cols=146  Identities=26%  Similarity=0.440  Sum_probs=131.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||+++.+.....+++..+.+.+||++|++.+...+..++++++++++|||+++++||+.+ ..|
T Consensus        17 sLi~r~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~-~~~   95 (171)
T d2erxa1          17 SLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEEL-KPI   95 (171)
T ss_dssp             HHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTT-HHH
T ss_pred             HHHHHHHhCCCCCccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEeecccccchhcc-cch
Confidence            5789999999999999999998888888999999999999999999999999999999999999999999999999 677


Q ss_pred             HHHHhhc---CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHY---APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~---~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+.+.   ..++|++|||||+|+.+.+.          ++.++++++++.+++ +|+||||++|.||+++|+.|++.+
T Consensus        96 ~~~~~~~~~~~~~~piilVgnK~Dl~~~~~----------v~~~e~~~~~~~~~~-~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1          96 YEQICEIKGDVESIPIMLVGNKCDESPSRE----------VQSSEAEALARTWKC-AFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             HHHHHHHHC---CCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             hhhhhhhhccCCCCcEEEEeeccccccccc----------ccHHHHHHHHHHcCC-eEEEEcCCCCcCHHHHHHHHHHHH
Confidence            7666543   25799999999999976553          888999999999998 899999999999999999999865


Q ss_pred             h
Q 030337          160 L  160 (179)
Q Consensus       160 ~  160 (179)
                      .
T Consensus       165 ~  165 (171)
T d2erxa1         165 K  165 (171)
T ss_dssp             C
T ss_pred             H
Confidence            4

>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=99.98  E-value=1.5e-32  Score=192.93  Aligned_cols=146  Identities=27%  Similarity=0.413  Sum_probs=129.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.++|.||+|..+.+.+..++..+.++|||++|++.+. ....++++++++++|||++++.||+.+ ..|
T Consensus        17 sli~r~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   94 (168)
T d2atva1          17 ALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEV-LPL   94 (168)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCCccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeecccCCccchhhh-hhh
Confidence            688999999999999999999998888899999999999999998875 456789999999999999999999999 666


Q ss_pred             HHHHhhc--CCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCC-cHHHHHHHHHHHH
Q 030337           83 IPELRHY--APGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQ-NVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~--~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~-~i~~~f~~l~~~i  159 (179)
                      ...+...  .++.|+++||||+|+..+.          .++.++++++++.+++ .|+||||++|. ||+++|..|++.+
T Consensus        95 ~~~~~~~~~~~~~piilvgnK~Dl~~~r----------~V~~~e~~~~a~~~~~-~~~e~Saktg~gnV~e~F~~l~~~i  163 (168)
T d2atva1          95 KNILDEIKKPKNVTLILVGNKADLDHSR----------QVSTEEGEKLATELAC-AFYECSACTGEGNITEIFYELCREV  163 (168)
T ss_dssp             HHHHHHHHTTSCCCEEEEEECGGGGGGC----------CSCHHHHHHHHHHHTS-EEEECCTTTCTTCHHHHHHHHHHHH
T ss_pred             cccccccccccCcceeeeccchhhhhhc----------cCcHHHHHHHHHHhCC-eEEEEccccCCcCHHHHHHHHHHHH
Confidence            6554432  2589999999999997654          3899999999999998 89999999998 5999999999987


Q ss_pred             hC
Q 030337          160 LQ  161 (179)
Q Consensus       160 ~~  161 (179)
                      .+
T Consensus       164 ~~  165 (168)
T d2atva1         164 RR  165 (168)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=99.98  E-value=3.6e-31  Score=189.94  Aligned_cols=151  Identities=28%  Similarity=0.510  Sum_probs=134.8

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++++.|.+++.||.+..+. +.+.+++..+.+.||||+|+++|..+|+.++++++++|+|||++++++|..+ ..
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~-~~   99 (194)
T d2bcgy1          21 CLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGV-KM   99 (194)
T ss_dssp             HHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhH-hh
Confidence            578999999999999999997765 7788899999999999999999999999999999999999999999999998 66


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.+.. .+.|+++||||.|+.+...          +..+++..+++..++ .++++||++|.||+++|+.+++.+.
T Consensus       100 ~~~~~~~~~~~~~~iilv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~SAk~g~gi~e~f~~l~~~i~  168 (194)
T d2bcgy1         100 WLQEIDRYATSTVLKLLVGNKCDLKDKRV----------VEYDVAKEFADANKM-PFLETSALDSTNVEDAFLTMARQIK  168 (194)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTTCC----------SCHHHHHHHHHHTTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhhhhcccCCceEEEEEeccccccccc----------hhHHHHhhhhhccCc-ceEEEecCcCccHHHHHHHHHHHHH
Confidence            766666544 6899999999999976553          888999999999998 7999999999999999999999887


Q ss_pred             CCchh
Q 030337          161 QPPKQ  165 (179)
Q Consensus       161 ~~~~~  165 (179)
                      .....
T Consensus       169 ~~~~~  173 (194)
T d2bcgy1         169 ESMSQ  173 (194)
T ss_dssp             HHCCH
T ss_pred             HHhhh
Confidence            64433

>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=99.98  E-value=6.7e-32  Score=190.04  Aligned_cols=147  Identities=27%  Similarity=0.489  Sum_probs=132.6

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+++++++.|.+.+.|+++..+. +.+.+++..+++++|||+|++.|..+++.++++++++++|||++++.+++.+ ..
T Consensus        20 sLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   98 (171)
T d2ew1a1          20 CLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCL-PE   98 (171)
T ss_dssp             HHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhh-hh
Confidence            588999999999999999986554 7888999999999999999999999999999999999999999999999999 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.+.. ..+|++|||||+|+.....          ++.+++..+++.+++ ++++|||++|.||+++|.+++++++
T Consensus        99 ~~~~i~~~~~~~~~~ilvgnK~D~~~~~~----------v~~~~~~~~~~~~~~-~~~~~SAktg~gV~e~f~~l~~~l~  167 (171)
T d2ew1a1          99 WLREIEQYASNKVITVLVGNKIDLAERRE----------VSQQRAEEFSEAQDM-YYLETSAKESDNVEKLFLDLACRLI  167 (171)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCS----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhhcccccccccEEEEEeecccccccc----------hhhhHHHHHHHhCCC-EEEEEccCCCCCHHHHHHHHHHHHH
Confidence            777776554 5799999999999976553          888899999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       168 ~  168 (171)
T d2ew1a1         168 S  168 (171)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.97  E-value=2.8e-31  Score=186.55  Aligned_cols=147  Identities=28%  Similarity=0.553  Sum_probs=132.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.|++++.|.+.+.|+.+..+ .+.+..++..+.+++|||||++++..+++.++++++++|+|||+++++++..+ ..
T Consensus        20 sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~-~~   98 (169)
T d3raba_          20 SFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAV-QD   98 (169)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhh-hh
Confidence            57889999999999999998544 47777889999999999999999999999999999999999999999999998 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.... ++.|+++||||.|+.+..          .++.+++..+++..++ ++++|||++|.||+++|+++++.++
T Consensus        99 ~~~~~~~~~~~~~~iivv~nK~D~~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~g~gv~e~f~~l~~~i~  167 (169)
T d3raba_          99 WSTQIKTYSWDNAQVLLVGNKCDMEDER----------VVSSERGRQLADHLGF-EFFEASAKDNINVKQTFERLVDVIC  167 (169)
T ss_dssp             HHHHHHHHCCSCCEEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhhhhhcccCCcceEEEEEeeccccccc----------ccchhhhHHHHHHcCC-EEEEecCCCCcCHHHHHHHHHHHHh
Confidence            766666555 689999999999997655          3888899999999998 8999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       168 e  168 (169)
T d3raba_         168 E  168 (169)
T ss_dssp             T
T ss_pred             h
Confidence            5

>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=99.97  E-value=6.5e-32  Score=189.37  Aligned_cols=147  Identities=27%  Similarity=0.479  Sum_probs=134.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+++.||+++.+.+...+++..+.+++||++|++.+...+..++++++++++|||++++.+|.++ ..|
T Consensus        18 sLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~-~~~   96 (167)
T d1kaoa_          18 ALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDI-KPM   96 (167)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCCccCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhh-hch
Confidence            5889999999999999999998888899999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      ...+....  +++|++|||||+|+.....          +..+++..+++.+++ +++||||++|.||+++|+.+++++.
T Consensus        97 ~~~~~~~~~~~~~piilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_          97 RDQIIRVKRYEKVPVILVGNKVDLESERE----------VSSSEGRALAEEWGC-PFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHTTTSCCCEEEEEECGGGGGGCC----------SCHHHHHHHHHHHTS-CEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccCCCCCEEEEEEccchhhccc----------chHHHHHHHHHHcCC-eEEEECCCCCcCHHHHHHHHHHHHc
Confidence            77776544  5799999999999976553          788899999999998 7999999999999999999999875


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      .
T Consensus       166 ~  166 (167)
T d1kaoa_         166 Y  166 (167)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=99.97  E-value=1e-31  Score=189.06  Aligned_cols=146  Identities=29%  Similarity=0.531  Sum_probs=130.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|++||+++.|.+++.||.++.+.+.+.+++..+.+++||++|++.+...+..++++++++++|||++++.||+.+ ..|
T Consensus        20 sLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~   98 (171)
T d2erya1          20 ALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEI-YKF   98 (171)
T ss_dssp             HHHHHHHHSCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCcccCcccccceeeeeeecccccccccccccccccccccccccccccceEEEeeccccccchhhH-HHH
Confidence            5889999999999999999999999999999999999999999999999999999999999999999999999999 788


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..  ...|++|||||+|+..+.          .++.+++..+++.+++ +|+||||++|.||+++|+.|++.+.
T Consensus        99 ~~~~~~~~~~~~~p~ilvgnK~Dl~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~~~~i~e~f~~l~~~i~  167 (171)
T d2erya1          99 QRQILRVKDRDEFPMILIGNKADLDHQR----------QVTQEEGQQLARQLKV-TYMEASAKIRMNVDQAFHELVRVIR  167 (171)
T ss_dssp             HHHHHHHHTSSCCSEEEEEECTTCTTSC----------SSCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hHHHHhhcccCCCCEEEEEeccchhhhc----------cchHHHHHHHHHHcCC-EEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            87665543  579999999999997654          3888999999999998 8999999999999999999999874

>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=99.97  E-value=5.5e-31  Score=184.64  Aligned_cols=145  Identities=23%  Similarity=0.456  Sum_probs=131.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.||.+..+. .....++..+.+.+||++|++.+..++..++++++++|+|||++++++|+.+ ..
T Consensus        19 sli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   97 (167)
T d1z0ja1          19 SIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTL-KN   97 (167)
T ss_dssp             HHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhH-HH
Confidence            588999999999999999987665 6666788889999999999999999999999999999999999999999999 77


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |...+.... ++.|++|||||+|+.+++.          ++.++++++++.+++ .|+||||++|.||+++|.+|++++
T Consensus        98 ~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1          98 WVRELRQHGPPSIVVAIAGNKCDLTDVRE----------VMERDAKDYADSIHA-IFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             HHHHHHHHSCTTSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             hhhhhhhccCCcceEEEecccchhccccc----------hhHHHHHHHHHHcCC-EEEEEecCCCCCHHHHHHHHHHhC
Confidence            877777665 6899999999999976553          888999999999998 899999999999999999999986

>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=99.97  E-value=1.3e-32  Score=193.77  Aligned_cols=147  Identities=25%  Similarity=0.409  Sum_probs=125.0

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.||+|..+ .+.+..++..+.+.+|||+|++.+..+++.++++++++++|||+++++||+.+ ..
T Consensus        18 sli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~-~~   96 (170)
T d1i2ma_          18 TFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNV-PN   96 (170)
T ss_dssp             HHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTH-HH
T ss_pred             HHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhccccccccccchh-HH
Confidence            57899999999999999999655 47777889999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           82 WIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        82 ~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      |+..+.+..+++|+++||||+|+....           . .+++..+++..++ +|+|+||++|.||+++|++|++.++.
T Consensus        97 ~~~~~~~~~~~~piilvgnK~Dl~~~~-----------~-~~~~~~~~~~~~~-~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_          97 WHRDLVRVCENIPIVLCGNKVDIKDRK-----------V-KAKSIVFHRKKNL-QYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             HHHHHHHHHCSCCEEEEEECCCCSCSC-----------C-TTTSHHHHSSCSS-EEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             HHHHHhhccCCCceeeecchhhhhhhh-----------h-hhHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            988888777789999999999997643           1 2345677888888 89999999999999999999999885


Q ss_pred             Cc
Q 030337          162 PP  163 (179)
Q Consensus       162 ~~  163 (179)
                      .+
T Consensus       164 ~~  165 (170)
T d1i2ma_         164 DP  165 (170)
T ss_dssp             CT
T ss_pred             CC
Confidence            43

>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=99.97  E-value=6.2e-31  Score=184.21  Aligned_cols=146  Identities=27%  Similarity=0.486  Sum_probs=132.1

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.|++++.|.+++.|+.+..+. +....++..+.+++||++|++++..++..++++++++++|||++++.||+.+ ..
T Consensus        19 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~~   97 (166)
T d1z0fa1          19 CLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHL-SS   97 (166)
T ss_dssp             HHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHH-HH
Confidence            588999999999999999986665 7778899999999999999999999999999999999999999999999998 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.+.. ...|++++|||+|+.....          +..++++.+++.+++ ++++|||++|.||+++|++|++.+.
T Consensus        98 ~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Saktg~~v~e~f~~i~~~i~  166 (166)
T d1z0fa1          98 WLTDARNLTNPNTVIILIGNKADLEAQRD----------VTYEEAKQFAEENGL-LFLEASAKTGENVEDAFLEAAKKIY  166 (166)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHhhccccceEEEEcccccchhhcc----------cHHHHHHHHHHHcCC-EEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            777777655 6899999999999976553          778899999999998 9999999999999999999998763

>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=99.97  E-value=4.7e-31  Score=184.35  Aligned_cols=146  Identities=29%  Similarity=0.486  Sum_probs=131.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.|+++..+. .....++..+.+.+||++|++.+...+..++++++++++|||++++.||+.+ ..
T Consensus        15 sLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i-~~   93 (164)
T d1yzqa1          15 SLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQT-TK   93 (164)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhh-Hh
Confidence            588999999999999999986554 6666788999999999999999999999999999999999999999999999 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.... +++|++|||||+|+.....          +..+++.++++.+++ .|+||||++|.||+++|++|++++.
T Consensus        94 ~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1          94 WIDDVRTERGSDVIIMLVGNKTDLADKRQ----------VSIEEGERKAKELNV-MFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             HHHHHHHHHTTSSEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             hHHHHHHhcCCCceEEEEecccchhhhhh----------hhHHHHHHHHHHcCC-EEEEecCCCCcCHHHHHHHHHHhhC
Confidence            777776654 6899999999999976553          788899999999998 8999999999999999999999764

>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=99.97  E-value=8.2e-31  Score=184.25  Aligned_cols=147  Identities=29%  Similarity=0.481  Sum_probs=132.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+.+.||.+..+. .....++..+.+.+||++|++.+..++..++++++++++|||++++.+|+.+ ..
T Consensus        21 sLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~   99 (170)
T d1r2qa_          21 SLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARA-KN   99 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHH-HH
Confidence            578999999999999999997765 6677788899999999999999999999999999999999999999999999 66


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.+.. +++|++|||||+|+..+..          ++.+.++++++.+++ +|+||||++|.||+++|+.|++.+.
T Consensus       100 ~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----------v~~e~~~~~~~~~~~-~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         100 WVKELQRQASPNIVIALSGNKADLANKRA----------VDFQEAQSYADDNSL-LFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             HhhhhhhccCCCceEEeeccccccccccc----------ccHHHHHHHHHhcCC-EEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            777776554 6899999999999977654          889999999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       169 ~  169 (170)
T d1r2qa_         169 K  169 (170)
T ss_dssp             C
T ss_pred             h
Confidence            5

>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=99.97  E-value=1.2e-30  Score=183.97  Aligned_cols=146  Identities=26%  Similarity=0.516  Sum_probs=106.3

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++++.|.+.+.||++..+ .+.+..++..+.+++|||+|++.+..++..++++++++|+|||++++.||+.+ ..
T Consensus        21 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   99 (173)
T d2fu5c1          21 CVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNI-RN   99 (173)
T ss_dssp             -------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHH-HH
Confidence            68999999999999999998555 48888999999999999999999999999999999999999999999999999 77


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.... .+.|+++||||.|+.....          ...+++..+++..++ ++++|||++|.||+++|++|++.+.
T Consensus       100 ~~~~~~~~~~~~~~iilv~~k~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~g~gv~e~f~~l~~~i~  168 (173)
T d2fu5c1         100 WIRNIEEHASADVEKMILGNKCDVNDKRQ----------VSKERGEKLALDYGI-KFMETSAKANINVENAFFTLARDIK  168 (173)
T ss_dssp             HHHHHHHHSCTTCEEEEEEEC--CCSCCC----------SCHHHHHHHHHHHTC-EEEECCC---CCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhccCCceEEEEEecccchhhcc----------cHHHHHHHHHHhcCC-EEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            777776554 6899999999999976553          777888999999998 8999999999999999999999884

>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=99.97  E-value=1.5e-30  Score=182.79  Aligned_cols=149  Identities=29%  Similarity=0.479  Sum_probs=132.7

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+.+.||+|+.+. +.+..+++.+.++|||++|++++..+++.++++++++++|||++++.||+++ ..
T Consensus        18 sLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~   96 (170)
T d1ek0a_          18 SIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKA-RH   96 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHH-HH
T ss_pred             HHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhh-hh
Confidence            588999999999999999997665 7888899999999999999999999999999999999999999999999999 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.... ...|++++|||+|+.++.       ..+.++.+++.++++.+++ +|+||||++|.||+++|+.|+++|.
T Consensus        97 ~~~~~~~~~~~~~~~~~v~nk~d~~~~~-------~~~~v~~~~~~~~~~~~~~-~~~e~Sak~g~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_          97 WVKELHEQASKDIIIALVGNKIDMLQEG-------GERKVAREEGEKLAEEKGL-LFFETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGSS-------CCCCSCHHHHHHHHHHHTC-EEEECCTTTCTTHHHHHHHHHTTSC
T ss_pred             hhhhhccccccccceeeeeccccccccc-------chhhhhHHHHHHHHHHcCC-EEEEecCCCCcCHHHHHHHHHHHhc
Confidence            766655544 679999999999997542       2456888999999999999 9999999999999999999988764

>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=99.97  E-value=1.2e-30  Score=184.06  Aligned_cols=148  Identities=28%  Similarity=0.437  Sum_probs=133.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+.+.|.+.+.||.+..+. ..+..++..+.+++|||+|++++..+++.++++++++|+|||++++++|..+ ..
T Consensus        20 sll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   98 (174)
T d2bmea1          20 CLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNAL-TN   98 (174)
T ss_dssp             HHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHH-hh
Confidence            578999999999999999986655 6677789999999999999999999999999999999999999999999998 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.... .+.|+++||||+|+..+..          +..+.+..+++.+++ ++++|||++|.||+++|+++++.++
T Consensus        99 ~~~~~~~~~~~~~piivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sak~~~gi~e~f~~l~~~i~  167 (174)
T d2bmea1          99 WLTDARMLASQNIVIILCGNKKDLDADRE----------VTFLEASRFAQENEL-MFLETSALTGENVEEAFVQCARKIL  167 (174)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECGGGGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhcccccccCCceEEEEEEecccccchhc----------hhhhHHHHHHHhCCC-EEEEeeCCCCcCHHHHHHHHHHHHH
Confidence            777776655 6899999999999976553          788889999999998 8999999999999999999999987


Q ss_pred             CC
Q 030337          161 QP  162 (179)
Q Consensus       161 ~~  162 (179)
                      ++
T Consensus       168 ~~  169 (174)
T d2bmea1         168 NK  169 (174)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=99.97  E-value=1.5e-30  Score=182.31  Aligned_cols=146  Identities=31%  Similarity=0.524  Sum_probs=134.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.||+++.|.+.+.||+++.+...+..++..+.+.+||++|++.+...++.++++++++++|||++++.+|+.+ ..|
T Consensus        18 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~-~~~   96 (166)
T d1ctqa_          18 ALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDI-HQY   96 (166)
T ss_dssp             HHHHHHHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTH-HHH
T ss_pred             HHHHHHHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHH-HHH
Confidence            5889999999999999999999888888899999999999999999999999999999999999999999999998 899


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      +..+.+..  +++|+++||||+|+....           +..++++++++.+++ +|++|||++|.||+++|+++++.+.
T Consensus        97 ~~~i~~~~~~~~~piilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~-~~~e~Sak~g~gi~e~f~~i~~~i~  164 (166)
T d1ctqa_          97 REQIKRVKDSDDVPMVLVGNKCDLAART-----------VESRQAQDLARSYGI-PYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHTCSSCCEEEEEECTTCSCCC-----------SCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCeEEEEeccccccccc-----------ccHHHHHHHHHHhCC-eEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            99888754  579999999999996543           778899999999998 8999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       165 ~  165 (166)
T d1ctqa_         165 Q  165 (166)
T ss_dssp             T
T ss_pred             h
Confidence            4

>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=99.97  E-value=5.3e-30  Score=180.91  Aligned_cols=147  Identities=30%  Similarity=0.501  Sum_probs=128.8

Q ss_pred             eeehhhhhCCCCCcccCceeece-eeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|++|++++.|.+++.|+.+... ...+..++..+.+.|||++|+++|...+..++++++++|+|||++++.||+.+ ..
T Consensus        19 sLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~-~~   97 (175)
T d2f9la1          19 NLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENV-ER   97 (175)
T ss_dssp             HHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhH-HH
Confidence            58899999999999999988554 47778899999999999999999999999999999999999999999999999 78


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.+.. +++|++|||||+|+.+...          ...+.+..+.+..+. ++++|||++|.|++++|+++++.+.
T Consensus        98 ~~~~i~~~~~~~~piilvgnK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~e~Sa~~g~~i~e~f~~l~~~i~  166 (175)
T d2f9la1          98 WLKELRDHADSNIVIMLVGNKSDLRHLRA----------VPTDEARAFAEKNNL-SFIETSALDSTNVEEAFKNILTEIY  166 (175)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCcEEEEEeeeccccccc----------chHHHHHHhhcccCc-eEEEEecCCCcCHHHHHHHHHHHHH
Confidence            888887776 6799999999999987553          667777888888887 9999999999999999999999876


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       167 ~  167 (175)
T d2f9la1         167 R  167 (175)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.97  E-value=6.2e-30  Score=180.24  Aligned_cols=147  Identities=25%  Similarity=0.467  Sum_probs=127.4

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+.+.|+.+.... .....++..+.+.+||++|++.+..+++.+++++|++|+|||++++.||+.+ ..
T Consensus        18 sli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~-~~   96 (173)
T d2a5ja1          18 CLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL-TS   96 (173)
T ss_dssp             HHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhH-HH
Confidence            578999999999999999875554 6666788899999999999999999999999999999999999999999999 67


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+..+.+.. .++|++|||||+|+.....          +..+++..+++.+++ +|+|+||++|.||+++|.++++.+.
T Consensus        97 ~~~~~~~~~~~~~piilv~nK~D~~~~~~----------~~~~~~~~~a~~~~~-~~~e~Sa~tg~~V~e~f~~i~~~i~  165 (173)
T d2a5ja1          97 WLEDARQHSSSNMVIMLIGNKSDLESRRD----------VKREEGEAFAREHGL-IFMETSAKTACNVEEAFINTAKEIY  165 (173)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCGGGCC----------SCHHHHHHHHHHHTC-EEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCeEEEEecCCchhhhhh----------hHHHHHHHHHHHcCC-EEEEecCCCCCCHHHHHHHHHHHHH
Confidence            777776655 6899999999999976553          788899999999998 8999999999999999999999887


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       166 ~  166 (173)
T d2a5ja1         166 R  166 (173)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.96  E-value=4e-29  Score=175.50  Aligned_cols=146  Identities=32%  Similarity=0.553  Sum_probs=119.3

Q ss_pred             eeehhhhhCCCCCc-ccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQD-YVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~-~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|+++.|.++ +.|+++..+. ..+..++..+.++||||+|++++..++..++++++++++|||++++.|++.+ .
T Consensus        21 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~   99 (170)
T d2g6ba1          21 CLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNI-Q   99 (170)
T ss_dssp             HHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhh-h
Confidence            57899999999755 4566675554 6788899999999999999999999999999999999999999999999999 5


Q ss_pred             HHHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           81 KWIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        81 ~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .|...+.+.. ...|+++|+||+|+....          .++.+++..+++.+++ +++++||++|.||+++|++|++.+
T Consensus       100 ~~~~~~~~~~~~~~~iilv~~k~d~~~~~----------~v~~~~~~~~~~~~~~-~~~e~Sak~g~gi~e~f~~l~~~i  168 (170)
T d2g6ba1         100 AWLTEIHEYAQHDVALMLLGNKVDSAHER----------VVKREDGEKLAKEYGL-PFMETSAKTGLNVDLAFTAIAKEL  168 (170)
T ss_dssp             HHHHHHHHHSCTTCEEEEEEECCSTTSCC----------CSCHHHHHHHHHHHTC-CEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hhhhhhhhccCCCceEEEEEeeechhhcc----------cccHHHHHHHHHHcCC-EEEEEeCCCCcCHHHHHHHHHHHc
Confidence            6655555444 678999999999997655          3888999999999998 899999999999999999999987


Q ss_pred             h
Q 030337          160 L  160 (179)
Q Consensus       160 ~  160 (179)
                      .
T Consensus       169 ~  169 (170)
T d2g6ba1         169 K  169 (170)
T ss_dssp             H
T ss_pred             C
Confidence            5

>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=99.96  E-value=2.7e-30  Score=184.00  Aligned_cols=148  Identities=32%  Similarity=0.512  Sum_probs=130.3

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECC----------eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDG----------STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~----------~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|++|++++.|.+++.||.+..+. +.+.+++          ..+.+.+|||+|++.|..++..++++++++|+|||+++
T Consensus        20 sLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~   99 (186)
T d2f7sa1          20 TFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTS   99 (186)
T ss_dssp             HHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTC
T ss_pred             HHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccc
Confidence            478999999999999999986664 5555543          35789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHH
Q 030337           72 KASYENVAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVK  149 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~  149 (179)
                      +.+|+.+ ..|+..+....  +.+|++|||||.|+....          +++.+++.++++.+++ ++++|||++|.||+
T Consensus       100 ~~s~~~~-~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~----------~v~~~e~~~~~~~~~~-~~~e~Sak~~~~i~  167 (186)
T d2f7sa1         100 QQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQR----------EVNERQARELADKYGI-PYFETSAATGQNVE  167 (186)
T ss_dssp             HHHHHHH-HHHHHTCCCCCTTTCCEEEEEEECTTCGGGC----------CSCHHHHHHHHHHTTC-CEEEEBTTTTBTHH
T ss_pred             cccceee-eeccchhhhhccCCCceEEEEeeeccchhhh----------cchHHHHHHHHHHcCC-EEEEEeCCCCCCHH
Confidence            9999999 78888777654  478999999999997655          3889999999999998 89999999999999


Q ss_pred             HHHHHHHHHHhCC
Q 030337          150 AVFDAAIKVVLQP  162 (179)
Q Consensus       150 ~~f~~l~~~i~~~  162 (179)
                      ++|+++++.+.++
T Consensus       168 e~f~~l~~~i~~k  180 (186)
T d2f7sa1         168 KAVETLLDLIMKR  180 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988743

>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=99.96  E-value=2.8e-29  Score=175.66  Aligned_cols=146  Identities=29%  Similarity=0.539  Sum_probs=124.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+++++++.|.+.+.||++..+. +.+.+++..+.+.+|||||++.|..++..++++++++++|||++++.||+.+ ..
T Consensus        17 Sli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~-~~   95 (166)
T d1g16a_          17 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNI-KQ   95 (166)
T ss_dssp             HHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHH-Hh
Confidence            578999999999999999996665 7888899999999999999999999999999999999999999999999998 66


Q ss_pred             HHHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           82 WIPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        82 ~~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |...+.... ...|++++++|.|+....           ...+++..+++.+++ ++++|||++|.||+++|++|++.+.
T Consensus        96 ~~~~~~~~~~~~~~~i~~~~k~d~~~~~-----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~e~f~~l~~~i~  163 (166)
T d1g16a_          96 WFKTVNEHANDEAQLLLVGNKSDMETRV-----------VTADQGEALAKELGI-PFIESSAKNDDNVNEIFFTLAKLIQ  163 (166)
T ss_dssp             HHHHHHHHSCTTCEEEEEEECTTCTTCC-----------SCHHHHHHHHHHHTC-CEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCcceeeeecchhhhhhhh-----------hhHHHHHHHHHhcCC-eEEEECCCCCCCHHHHHHHHHHHHH
Confidence            766666555 578999999999987644           678899999999998 8999999999999999999999886


Q ss_pred             C
Q 030337          161 Q  161 (179)
Q Consensus       161 ~  161 (179)
                      +
T Consensus       164 ~  164 (166)
T d1g16a_         164 E  164 (166)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=99.96  E-value=1.1e-28  Score=174.42  Aligned_cols=148  Identities=27%  Similarity=0.540  Sum_probs=134.2

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.++.++.|.+++.|+.+..+. +.+.+++..+.+.||||+|++++..+++.++++++++++|||++++.+++.+ ..
T Consensus        22 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~  100 (177)
T d1x3sa1          22 SLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKL-DN  100 (177)
T ss_dssp             HHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccc-hh
Confidence            578999999999999999986654 6788899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           82 WIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        82 ~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      |+..+.+..  ...|+++++||.|....           .++.+++..+++.+++ .++++||++|.||+++|+++++.+
T Consensus       101 ~~~~i~~~~~~~~~~i~~~~nk~d~~~~-----------~v~~~~~~~~~~~~~~-~~~e~Sa~tg~gv~e~f~~l~~~l  168 (177)
T d1x3sa1         101 WLNELETYCTRNDIVNMLVGNKIDKENR-----------EVDRNEGLKFARKHSM-LFIEASAKTCDGVQCAFEELVEKI  168 (177)
T ss_dssp             HHHHHTTCCSCSCCEEEEEEECTTSSSC-----------CSCHHHHHHHHHHTTC-EEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hhhhhcccccccceeeEEEeeccccccc-----------cccHHHHHHHHHHCCC-EEEEEeCCCCCCHHHHHHHHHHHH
Confidence            888887765  47999999999997653           3888899999999998 899999999999999999999999


Q ss_pred             hCCc
Q 030337          160 LQPP  163 (179)
Q Consensus       160 ~~~~  163 (179)
                      ++.+
T Consensus       169 ~~~p  172 (177)
T d1x3sa1         169 IQTP  172 (177)
T ss_dssp             HTSG
T ss_pred             ccCc
Confidence            9765

>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=99.96  E-value=4.5e-29  Score=175.84  Aligned_cols=149  Identities=28%  Similarity=0.473  Sum_probs=115.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEE-EE-CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANV-VV-DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~-~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.+|+++.|.+.+.||.+....... .. +...+.+.+|||+|++++...+..+++.++++++|||++++.||+.+ .
T Consensus        17 sLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~   95 (175)
T d1ky3a_          17 SLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENI-K   95 (175)
T ss_dssp             HHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchh-h
Confidence            578999999999999999986665333 32 45668899999999999999999999999999999999999999998 7


Q ss_pred             HHHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           81 KWIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      .|+..+....     .++|++|||||+|+.....         .++.++++++++.++..+|++|||++|.||+++|++|
T Consensus        96 ~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~---------~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l  166 (175)
T d1ky3a_          96 SWRDEFLVHANVNSPETFPFVILGNKIDAEESKK---------IVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI  166 (175)
T ss_dssp             HHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGC---------CSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHH
T ss_pred             hcchhhhhhhhhcccccCcEEEEecccchhhhhc---------chhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHH
Confidence            8988876532     3789999999999976432         4678899999999986689999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      ++.+++
T Consensus       167 ~~~~l~  172 (175)
T d1ky3a_         167 ARSALQ  172 (175)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998864

>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=99.96  E-value=1.4e-28  Score=173.35  Aligned_cols=147  Identities=31%  Similarity=0.523  Sum_probs=126.9

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.||+++.|.+++.||++..+. +....++..+.+++||++|+..+...+..++..+++++++||++++.||+.+ ..
T Consensus        21 Sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~-~~   99 (174)
T d1wmsa_          21 SLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNL-SN   99 (174)
T ss_dssp             HHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchh-hh
Confidence            578999999999999999986664 7777899999999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |++.+....     .++|++|||||+|+.+.           .++.+++.++++..+..+|+||||++|.||+++|++|+
T Consensus       100 ~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~-----------~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~  168 (174)
T d1wmsa_         100 WKKEFIYYADVKEPESFPFVILGNKIDISER-----------QVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV  168 (174)
T ss_dssp             HHHHHHHHHTCSCTTTSCEEEEEECTTCSSC-----------SSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCceEEEeccccchhhc-----------cCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHH
Confidence            988776532     36999999999999652           38889999999988655899999999999999999999


Q ss_pred             HHHhC
Q 030337          157 KVVLQ  161 (179)
Q Consensus       157 ~~i~~  161 (179)
                      +.++.
T Consensus       169 ~~il~  173 (174)
T d1wmsa_         169 RRVLA  173 (174)
T ss_dssp             HHHHT
T ss_pred             HHHhc
Confidence            99875

>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=99.96  E-value=1.5e-28  Score=173.49  Aligned_cols=147  Identities=22%  Similarity=0.227  Sum_probs=124.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+|+++.|.+ +.||.++.+.+.+.++++.+.++||||+|++.+     .|++++|++|+|||++++.||+++ ..|
T Consensus        20 sLi~~~~~~~f~~-~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf~~~-~~~   92 (175)
T d2bmja1          20 SLIHRFLTGSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAV-SRL   92 (175)
T ss_dssp             HHHHHHHHSCCCC-CCCSSCEEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHHHHH-HHH
T ss_pred             HHHHHHHhCCCCC-cCCccceeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhhhhh-HHH
Confidence            5789999999965 568888888888999999999999999999875     478999999999999999999998 788


Q ss_pred             HHHHhhcC----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337           83 IPELRHYA----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus        83 ~~~i~~~~----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      +..+....    .++|+++||||.|+....        .+.++.+++..+++..+...|+||||++|.||+++|..+++.
T Consensus        93 ~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~--------~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~  164 (175)
T d2bmja1          93 HGQLSSLRGEGRGGLALALVGTQDRISASS--------PRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQK  164 (175)
T ss_dssp             HHHHHHHCC--CCCCEEEEEEECTTCCSSS--------CCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCCccEEEEeeecCcchhh--------hcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHH
Confidence            88876543    468999999999985422        346788889999776544489999999999999999999998


Q ss_pred             HhCCch
Q 030337          159 VLQPPK  164 (179)
Q Consensus       159 i~~~~~  164 (179)
                      ++...+
T Consensus       165 i~~~~~  170 (175)
T d2bmja1         165 VVTLRK  170 (175)
T ss_dssp             HHHHHH
T ss_pred             HHHhhh
Confidence            875443

>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=99.96  E-value=2.4e-28  Score=173.59  Aligned_cols=152  Identities=26%  Similarity=0.442  Sum_probs=131.5

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKK   81 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~   81 (179)
                      +|+.+++++.|.++|.||+|..+. +.....+..+.+.+||++|++.+...+..++.++++++++||++++.+++.+ ..
T Consensus        17 SLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~-~~   95 (184)
T d1vg8a_          17 SLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL-DS   95 (184)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTH-HH
T ss_pred             HHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcc-hh
Confidence            578999999999999999986554 7777788899999999999999999999999999999999999999999998 78


Q ss_pred             HHHHHhhcC-----CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           82 WIPELRHYA-----PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        82 ~~~~i~~~~-----~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      |++.+....     .++|++|||||+|+.+..           +..+++..++...+..++++|||++|.||+++|++|+
T Consensus        96 ~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~  164 (184)
T d1vg8a_          96 WRDEFLIQASPRDPENFPFVVLGNKIDLENRQ-----------VATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA  164 (184)
T ss_dssp             HHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC-----------SCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHH
T ss_pred             hHHHHHHHhccccccCCCEEEEEEeecccccc-----------hhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHH
Confidence            988776542     368999999999986533           6777778887766545899999999999999999999


Q ss_pred             HHHhCCchhh
Q 030337          157 KVVLQPPKQK  166 (179)
Q Consensus       157 ~~i~~~~~~~  166 (179)
                      +.++++..+.
T Consensus       165 ~~i~~~~~~~  174 (184)
T d1vg8a_         165 RNALKQETEV  174 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHhccccc
Confidence            9988755443

>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=99.96  E-value=1.2e-28  Score=173.49  Aligned_cols=145  Identities=24%  Similarity=0.413  Sum_probs=120.9

Q ss_pred             eeehhhhhCCCC-CcccCcee-eceeeEEEECCeEEEEEEEeCC---CCccccccCcccccCccEEEEEEeCCChhhHHH
Q 030337            3 FIYIICNYSLGK-QDYVPTVF-DNFSANVVVDGSTVNLGLWDTA---GQEDYNRLRPLSYRGADVFILAFSLISKASYEN   77 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~---G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~   77 (179)
                      +|+.||+.+.|. +.+.||+| +.+.+.+.++++.+.+.+||++   |+++|  ++..++++++++|+|||++++.||++
T Consensus        18 sLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~s~~~   95 (172)
T d2g3ya1          18 TLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEK   95 (172)
T ss_dssp             HHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEEETTCHHHHHH
T ss_pred             HHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeeecccccchhhh
Confidence            578899988775 34556666 4566888899999999999965   45655  56778999999999999999999999


Q ss_pred             HHHHHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           78 VAKKWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        78 ~~~~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      + ..|...+....  +++|++|||||+|+..++          +++.++++.+++.+++ +|+||||++|.||+++|+.|
T Consensus        96 ~-~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~e~Sak~g~~i~~~f~~l  163 (172)
T d2g3ya1          96 A-SELRIQLRRARQTEDIPIILVGNKSDLVRCR----------EVSVSEGRACAVVFDC-KFIETSAAVQHNVKELFEGI  163 (172)
T ss_dssp             H-HHHHHHHHTSGGGTTSCEEEEEECTTCGGGC----------CSCHHHHHHHHHHHTC-EEEECBTTTTBSHHHHHHHH
T ss_pred             h-hhhhhhhhhccccCCceEEEEeccccccccc----------cccHHHHHHHHHHcCC-eEEEEeCCCCcCHHHHHHHH
Confidence            9 78888776554  589999999999997655          3888999999999998 89999999999999999999


Q ss_pred             HHHHhC
Q 030337          156 IKVVLQ  161 (179)
Q Consensus       156 ~~~i~~  161 (179)
                      ++++..
T Consensus       164 ~~~i~~  169 (172)
T d2g3ya1         164 VRQVRL  169 (172)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998753

>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=99.95  E-value=6e-28  Score=168.50  Aligned_cols=142  Identities=26%  Similarity=0.433  Sum_probs=125.0

Q ss_pred             eeehhhhhCCCCCcccCceeecee-eEEEECCeEEEEEEEeCCCCccccc-cCcccccCccEEEEEEeCCChhhHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFS-ANVVVDGSTVNLGLWDTAGQEDYNR-LRPLSYRGADVFILAFSLISKASYENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~~~~i~v~d~~~~~s~~~~~~   80 (179)
                      +|+.||+++.|.+.+.||.+..+. +...+.+....+.+||++|.+.+.. .++.+++++|++|+|||++|++||+.+ .
T Consensus        17 sLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~-~   95 (165)
T d1z06a1          17 CLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSL-P   95 (165)
T ss_dssp             HHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTH-H
T ss_pred             HHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhh-h
Confidence            588999999999999999997665 7778899999999999999887654 567799999999999999999999998 7


Q ss_pred             HHHHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCC---CcHHHHHHHH
Q 030337           81 KWIPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQ---QNVKAVFDAA  155 (179)
Q Consensus        81 ~~~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~---~~i~~~f~~l  155 (179)
                      .|+..+.+..  +++|++|||||+|+.+...          ++.++++++++.+++ +++||||++|   .||+++|++|
T Consensus        96 ~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~----------v~~~~~~~~~~~~~~-~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1          96 AWIEECKQHLLANDIPRILVGNKCDLRSAIQ----------VPTDLAQKFADTHSM-PLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             HHHHHHHHHCCCSCCCEEEEEECTTCGGGCC----------SCHHHHHHHHHHTTC-CEEECCSSSGGGGSCHHHHHHHH
T ss_pred             hhhHHHHhhccCCCCeEEEEeccccchhccc----------hhHHHHHHHHHHCCC-EEEEEecccCCcCcCHHHHHHHh
Confidence            8888887654  5899999999999977553          899999999999998 8999999974   5999999987


Q ss_pred             H
Q 030337          156 I  156 (179)
Q Consensus       156 ~  156 (179)
                      +
T Consensus       165 A  165 (165)
T d1z06a1         165 A  165 (165)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.93  E-value=1.1e-26  Score=161.96  Aligned_cols=145  Identities=18%  Similarity=0.252  Sum_probs=111.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|.+++.||+|..+. .+..++  +.+++||++|++.+...|..++.+++++++|||++++.+|... ..|
T Consensus        17 sLl~~l~~~~~~~~~~~T~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~-~~~   92 (164)
T d1zd9a1          17 TFVNVIASGQFNEDMIPTVGFNMR-KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEAS-KNE   92 (164)
T ss_dssp             HHHHHHHHSCCCCSCCCCCSEEEE-EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHHcCCCCCcccccceeeee-eeeeee--EEEEEeeccccccccccccccccccchhhcccccccccccchh-hhh
Confidence            578999999999999999986554 344455  8899999999999999999999999999999999999999998 445


Q ss_pred             HHHH-hhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPEL-RHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i-~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      +..+ +... ++.|++|||||.|+.+...       .+.+....+...++..+. .++++||++|.||+++|++|++.+
T Consensus        93 ~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~-------~~~i~~~~~~~~~~~~~~-~~~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1          93 LHNLLDKPQLQGIPVLVLGNKRDLPGALD-------EKELIEKMNLSAIQDREI-CCYSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             HHHHHTCGGGTTCCEEEEEECTTSTTCCC-------HHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHHHHTC
T ss_pred             hhhhhhhhcccCCcEEEEEeccccchhhh-------HHHHHHHHHHHHHHhCCC-EEEEEeCcCCcCHHHHHHHHHHcc
Confidence            4444 4433 6899999999999965321       000111111122233444 789999999999999999998853

>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=99.91  E-value=6.7e-24  Score=147.67  Aligned_cols=142  Identities=16%  Similarity=0.179  Sum_probs=110.0

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|++++.++.+ +.+.||+|... ..+..++  +.+.+||++|++.++..+..+++.++++++|||++|..++......|
T Consensus        17 sLi~~l~~~~~-~~~~~t~~~~~-~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~   92 (165)
T d1ksha_          17 TILKKFNGEDV-DTISPTLGFNI-KTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQREL   92 (165)
T ss_dssp             HHHHHHTTCCC-SSCCCCSSEEE-EEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCCC-CcccceEeeee-eeccccc--cceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhh
Confidence            46788877766 56789987443 3344455  88999999999999999999999999999999999999999886666


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...+.... .+.|++||+||+|+.+..            ..++.....     +..++ .+++|||++|.||.++|++|+
T Consensus        93 ~~~~~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~g~gv~e~~~~l~  159 (165)
T d1ksha_          93 QSLLVEERLAGATLLIFANKQDLPGAL------------SCNAIQEALELDSIRSHHW-RIQGCSAVTGEDLLPGIDWLL  159 (165)
T ss_dssp             HHHHTCGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHHH
T ss_pred             hhhhhhcccCCCceEEEEecccccccc------------CHHHHHHHHHhhhhhcCCC-EEEEEECCCCCCHHHHHHHHH
Confidence            66665443 689999999999996533            222222221     12233 689999999999999999999


Q ss_pred             HHHhC
Q 030337          157 KVVLQ  161 (179)
Q Consensus       157 ~~i~~  161 (179)
                      +++..
T Consensus       160 ~~i~~  164 (165)
T d1ksha_         160 DDISS  164 (165)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            98864

>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=99.90  E-value=5.9e-25  Score=155.53  Aligned_cols=142  Identities=15%  Similarity=0.159  Sum_probs=103.3

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++..+.|. ...||.+.... .+..++  +.+.+||++|++.++..+..++++++++++|||++|+.++..+...|
T Consensus        32 sLi~~l~~~~~~-~~~~t~~~~~~-~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l  107 (182)
T d1moza_          32 TILYRLQIGEVV-TTKPTIGFNVE-TLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKEL  107 (182)
T ss_dssp             HHHHHTCCSEEE-EECSSTTCCEE-EEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHH
T ss_pred             HHHHHHhcCCCC-ccccccceEEE-EEeeCC--EEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHH
Confidence            467788887774 45688774433 233344  88999999999999999999999999999999999999999884444


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-----HHHHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-----LRKLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ...+.... .+.|++|||||+|+.+.            .+.++..+     .+...++ .+++|||++|.||+++|++|+
T Consensus       108 ~~~~~~~~~~~~piliv~NK~Dl~~~------------~~~~~i~~~~~~~~~~~~~~-~~~e~SA~~g~gv~e~~~~l~  174 (182)
T d1moza_         108 HLMLQEEELQDAALLVFANKQDQPGA------------LSASEVSKELNLVELKDRSW-SIVASSAIKGEGITEGLDWLI  174 (182)
T ss_dssp             HHHTTSSTTSSCEEEEEEECTTSTTC------------CCHHHHHHHTTTTTCCSSCE-EEEEEBGGGTBTHHHHHHHHH
T ss_pred             HHHHHhhccCCcceEEEEEeeccccc------------cCHHHHHHHHHHHHHhhCCC-EEEEEECCCCCCHHHHHHHHH
Confidence            44454444 57999999999999653            22222222     1222343 789999999999999999999


Q ss_pred             HHHhC
Q 030337          157 KVVLQ  161 (179)
Q Consensus       157 ~~i~~  161 (179)
                      +.+.+
T Consensus       175 ~~i~~  179 (182)
T d1moza_         175 DVIKE  179 (182)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98753

>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=99.90  E-value=2.9e-24  Score=150.78  Aligned_cols=145  Identities=15%  Similarity=0.158  Sum_probs=105.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.|++.+.|.+ ..||.|..+ ......  .+.+.+||++|++.++..+..++++++++++|||++++.++..+...|
T Consensus        27 Sli~rl~~~~~~~-~~~t~~~~~-~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l  102 (173)
T d1e0sa_          27 TILYKLKLGQSVT-TIPTVGFNV-ETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQEL  102 (173)
T ss_dssp             HHHHHTTCCCCEE-EEEETTEEE-EEEEET--TEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCCCCC-ccceeeeeE-EEeecc--ceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHH
Confidence            5788998888754 456655333 223333  488999999999999999999999999999999999999999985555


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...++... .+.|+++|+||+|+.+...       ...+....+...++..++ .+++|||++|.||+++|++|.+.+
T Consensus       103 ~~~~~~~~~~~~piiiv~NK~Dl~~~~~-------~~~i~~~~~~~~~~~~~~-~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         103 HRIINDREMRDAIILIFANKQDLPDAMK-------PHEIQEKLGLTRIRDRNW-YVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             HHHHTSGGGTTCEEEEEEECTTSTTCCC-------HHHHHHHTTGGGCCSSCE-EEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHhhhcccccceeeeeeeccccccccc-------HHHHHHHHHHHHHHhCCC-EEEEeeCCCCcCHHHHHHHHHHhc
Confidence            55555443 5899999999999975321       000111111112222344 689999999999999999998764

>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=99.89  E-value=2.3e-24  Score=151.46  Aligned_cols=139  Identities=19%  Similarity=0.210  Sum_probs=105.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.++.++.|.+. .|+.|.. ...+..++  +.+.+||++|++.++..+..++++++++++|||++++.+++++ ..|
T Consensus        31 sLi~~l~~~~~~~~-~~~~~~~-~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~-~~~  105 (176)
T d1fzqa_          31 TLLKQLASEDISHI-TPTQGFN-IKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEET-GQE  105 (176)
T ss_dssp             HHHHHHCCSCCEEE-EEETTEE-EEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHH-HHH
T ss_pred             HHHHHHhcCCCCcc-eeeeeee-EEEeccCC--eeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhh-hhh
Confidence            57889999998543 4555532 23444444  8899999999999999999999999999999999999999998 455


Q ss_pred             HHHHhhc-C-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHH-----HHHHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337           83 IPELRHY-A-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEE-----LRKLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus        83 ~~~i~~~-~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      ...+... . .++|++|||||+|+....            ......+     .++...+ .+++|||++|.||+++|+||
T Consensus       106 ~~~~~~~~~~~~~pillv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~SA~tg~gv~e~~~~l  172 (176)
T d1fzqa_         106 LTELLEEEKLSCVPVLIFANKQDLLTAA------------PASEIAEGLNLHTIRDRVW-QIQSCSALTGEGVQDGMNWV  172 (176)
T ss_dssp             HHHHTTCGGGTTCCEEEEEECTTSTTCC------------CHHHHHHHTTGGGCCSSCE-EEEECCTTTCTTHHHHHHHH
T ss_pred             hhhhhhhhccCCCeEEEEEEeccccccc------------cHHHHHHHHHHHHHHhcCC-EEEEEeCCCCCCHHHHHHHH
Confidence            5444433 3 579999999999997533            2222222     1222333 78999999999999999999


Q ss_pred             HHHH
Q 030337          156 IKVV  159 (179)
Q Consensus       156 ~~~i  159 (179)
                      ++++
T Consensus       173 ~~~i  176 (176)
T d1fzqa_         173 CKNV  176 (176)
T ss_dssp             HHTC
T ss_pred             HhcC
Confidence            8753

>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=99.85  E-value=4.4e-22  Score=137.02  Aligned_cols=145  Identities=12%  Similarity=0.122  Sum_probs=109.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.|++.+.|.+.+.++..    .....+...+.+.+||++|.+.+...+..+++++++++++||++++.++..+...|
T Consensus        15 sLi~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~   90 (160)
T d1r8sa_          15 TILYKLKLGEIVTTIPTIGF----NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREEL   90 (160)
T ss_dssp             HHHHHHHHHCSSCCCCCSSC----CEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCCCCccccceee----EEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHH
Confidence            57889999999776555432    23345666789999999999999999999999999999999999999999984444


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .+.+.... ...|+++++||.|+.....       ..++.......+++..++ .+++|||++|.||+++|++|++++
T Consensus        91 ~~~~~~~~~~~~~i~~v~~k~d~~~~~~-------~~~i~~~~~~~~~~~~~~-~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_          91 MRMLAEDELRDAVLLVFANKQDLPNAMN-------AAEITDKLGLHSLRHRNW-YIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             HHHHTCGGGTTCEEEEEEECTTSTTCCC-------HHHHHHHTTGGGCSSCCE-EEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCceEEEEeeccccccccc-------HHHHHHHHHHHHHhhCCC-EEEEeECCCCCCHHHHHHHHHhcC
Confidence            44444333 5799999999999975331       011222222334445565 799999999999999999999864

>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=99.82  E-value=1.8e-20  Score=133.35  Aligned_cols=153  Identities=16%  Similarity=0.089  Sum_probs=111.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---------
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---------   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---------   73 (179)
                      +|+.||..+.|.  +.||+|..+. .  +....+.+++||++|++.++..|..+++++++++++||+++..         
T Consensus        17 sll~r~~~~~~~--~~pTiG~~~~-~--~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   91 (200)
T d2bcjq2          17 TFIKQMRIIHGS--GVPTTGIIEY-P--FDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNE   91 (200)
T ss_dssp             HHHHHHHHHTSS--CCCCCSCEEE-E--EECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTS
T ss_pred             HHHHHHhCCCCC--CCceeeEEEE-E--EeccceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhccc
Confidence            578999999984  7899995543 2  3444588999999999999999999999999999999998864         


Q ss_pred             --hHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc------cCCCCCccccHHHHHHHHHHh--C-------CC
Q 030337           74 --SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF------IDHPGAVPITTAQGEELRKLI--G-------SP  135 (179)
Q Consensus        74 --s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~--~-------~~  135 (179)
                        .++.. ..|...+.... .++|+++++||.|+.......      .......+.+...+..+....  +       ..
T Consensus        92 ~~~~e~~-~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~  170 (200)
T d2bcjq2          92 NRMEESK-ALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKII  170 (200)
T ss_dssp             BHHHHHH-HHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCE
T ss_pred             cchHHHH-HHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCce
Confidence              34444 78888887665 689999999999996543211      011111222333333332211  1       12


Q ss_pred             eEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          136 AYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       136 ~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      .+++|||++|.||+++|+.+.+.|++
T Consensus       171 ~~~~tSAk~~~ni~~vF~~i~~~I~~  196 (200)
T d2bcjq2         171 YSHFTCATDTENIRFVFAAVKDTILQ  196 (200)
T ss_dssp             EEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeEEEcCHhHHHHHHHHHHHHHH
Confidence            46799999999999999999888764

>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=99.80  E-value=1.6e-20  Score=133.11  Aligned_cols=151  Identities=17%  Similarity=0.084  Sum_probs=101.5

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHH------
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE------   76 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~------   76 (179)
                      +|++||..+.|.+.+.++        ..++...+.+++|||+|+++++.+|..|+++++++++|||+++..++.      
T Consensus        17 sl~~r~~~~~~~t~~~~~--------~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~   88 (195)
T d1svsa1          17 TIVKQMKIIHEAGTGIVE--------THFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEM   88 (195)
T ss_dssp             HHHHHHHHHHSCCCSEEE--------EEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTS
T ss_pred             HHHHHHhhCCCCCccEEE--------EEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhh
Confidence            478888888774443332        223444488999999999999999999999999999999999988662      


Q ss_pred             ----HHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc-c----CCCCCccccHHHHHH-----HHHHh-----CCCe
Q 030337           77 ----NVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF-I----DHPGAVPITTAQGEE-----LRKLI-----GSPA  136 (179)
Q Consensus        77 ----~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~-~----~~~~~~~~~~~~~~~-----~~~~~-----~~~~  136 (179)
                          +....|...+.... .+.|++++|||.|+....... +    ...........++..     +....     +-..
T Consensus        89 ~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~  168 (195)
T d1svsa1          89 NRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIY  168 (195)
T ss_dssp             BHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEE
T ss_pred             HHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcce
Confidence                22255666665544 579999999999985433211 0    000001112222221     11111     1124


Q ss_pred             EEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          137 YIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       137 ~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      +++|||++|.||+++|+.+.+.+++
T Consensus       169 ~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         169 THFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             EEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeECCHhHHHHHHHHHHHHHh
Confidence            6789999999999999999887763

>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=99.76  E-value=1.6e-18  Score=123.26  Aligned_cols=152  Identities=14%  Similarity=0.055  Sum_probs=97.2

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhh--------
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS--------   74 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s--------   74 (179)
                      +|+.||   .|.+.+.||+|... .++...+  +.+++||++|++.++..|..+++++++++++||.++..+        
T Consensus        17 sll~r~---~f~~~~~pTiG~~~-~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (200)
T d1zcba2          17 TFLKQM---RIIHGQDPTKGIHE-YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQT   90 (200)
T ss_dssp             HHHHHH---HHHHSCCCCSSEEE-EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEE
T ss_pred             HHHHHH---hcCCCCCCeeeeEE-EEEeeee--eeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccc
Confidence            467788   47888999999433 3344444  889999999999999999999999999999999998643        


Q ss_pred             --HHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc-c--C---CCCCccccHHHHHHHHHHh-----------CC
Q 030337           75 --YENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF-I--D---HPGAVPITTAQGEELRKLI-----------GS  134 (179)
Q Consensus        75 --~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~-~--~---~~~~~~~~~~~~~~~~~~~-----------~~  134 (179)
                        ++.....|...+.... .++|++|+|||.|+.++.... .  .   .-...+...+.+.++....           .+
T Consensus        91 ~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~i  170 (200)
T d1zcba2          91 NRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPL  170 (200)
T ss_dssp             EHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CC
T ss_pred             hhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCce
Confidence              3444233333444333 589999999999986532110 0  0   0001112233333332221           12


Q ss_pred             CeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          135 PAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       135 ~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                       .++++||+++.||+++|+.+.+.+++
T Consensus       171 -y~~~TsA~d~~ni~~vf~~v~d~i~~  196 (200)
T d1zcba2         171 -YHHFTTAINTENIRLVFRDVKDTILH  196 (200)
T ss_dssp             -EEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             -EEEEeeeeCcHHHHHHHHHHHHHHHH
Confidence             46689999999999999998887764

>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=99.75  E-value=1.6e-18  Score=121.03  Aligned_cols=140  Identities=14%  Similarity=0.181  Sum_probs=99.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.|+..+.|.+. .|+.+. ........+  +.+.+||++|++..+..+..++..++++++++|.++..++......+
T Consensus        30 sLi~rl~~~~~~~~-~~~~~~-~~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~  105 (177)
T d1zj6a1          30 TILYQFSMNEVVHT-SPTIGS-NVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREEL  105 (177)
T ss_dssp             HHHHHHHTTSCEEE-ECCSCS-SCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHH
T ss_pred             HHHHHHhcCCCCcc-ccccce-eEEEEeecc--eEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhh
Confidence            57889999988754 444442 234444455  78999999999999999999999999999999999999998873333


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH-----HHhCCCeEEEeccCCCCcHHHHHHHHH
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR-----KLIGSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                      ........ ...|+++|+||+|+....            ...+..+..     ...++ +++++||++|.||+++|++|+
T Consensus       106 ~~~~~~~~~~~~p~iiv~nK~Dl~~~~------------~~~~i~~~~~~~~~~~~~~-~~~~~Sa~tg~Gi~e~~~~L~  172 (177)
T d1zj6a1         106 YKMLAHEDLRKAGLLIFANKQDVKECM------------TVAEISQFLKLTSIKDHQW-HIQACCALTGEGLCQGLEWMM  172 (177)
T ss_dssp             HHHHTSGGGTTCEEEEEEECTTSTTCC------------CHHHHHHHHTGGGCCSSCE-EEEECBTTTTBTHHHHHHHHH
T ss_pred             hhhhhcccccceEEEEEEEcccccccC------------cHHHHHHHHHHHhhHhcCC-EEEEEeCCCCCCHHHHHHHHH
Confidence            33333222 589999999999996533            222222222     22333 799999999999999999999


Q ss_pred             HHH
Q 030337          157 KVV  159 (179)
Q Consensus       157 ~~i  159 (179)
                      +++
T Consensus       173 ~~l  175 (177)
T d1zj6a1         173 SRL  175 (177)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            876

>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=99.74  E-value=5.3e-18  Score=118.88  Aligned_cols=141  Identities=13%  Similarity=0.059  Sum_probs=98.6

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC--------cccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR--------PLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++.....  ....+|............+  ..+.+|||+|.......+        ..++++||++++|+|++++
T Consensus        20 SLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~   97 (178)
T d1wf3a1          20 TLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHP   97 (178)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSC
T ss_pred             HHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccccccccceeeeechhhh
Confidence            466777766432  2223333333333344455  578999999985543322        3347899999999999987


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+..+  ..|.+.+++...+.|+++|+||+|+...             ..+....+.+.++...++++||++|.|+++++
T Consensus        98 ~~~~~--~~i~~~l~~~~~~~piilv~NK~Dl~~~-------------~~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~  162 (178)
T d1wf3a1          98 PTPED--ELVARALKPLVGKVPILLVGNKLDAAKY-------------PEEAMKAYHELLPEAEPRMLSALDERQVAELK  162 (178)
T ss_dssp             CCHHH--HHHHHHHGGGTTTSCEEEEEECGGGCSS-------------HHHHHHHHHHTSTTSEEEECCTTCHHHHHHHH
T ss_pred             hcccc--cchhhheeccccchhhhhhhcccccccC-------------HHHHHHHHHhhcccCceEEEecCCCCCHHHHH
Confidence            66554  3566777776678999999999999542             23344556666666689999999999999999


Q ss_pred             HHHHHHHh
Q 030337          153 DAAIKVVL  160 (179)
Q Consensus       153 ~~l~~~i~  160 (179)
                      ++|++.+-
T Consensus       163 ~~i~~~lp  170 (178)
T d1wf3a1         163 ADLLALMP  170 (178)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHhCC
Confidence            99998764

>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=99.74  E-value=5.2e-18  Score=117.05  Aligned_cols=147  Identities=12%  Similarity=0.137  Sum_probs=109.1

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|.+. .||.+..+. ....++  +.+.+||.+|.+.+...+..++..++++++++|+++..++......+
T Consensus        20 SLi~~~~~~~~~~~-~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (169)
T d1upta_          20 TILYRLQVGEVVTT-IPTIGFNVE-TVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSEL   95 (169)
T ss_dssp             HHHHHHHHSSCCCC-CCCSSEEEE-EEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHH
T ss_pred             HHHHHHhCCCCcce-ecccceeee-eeccCc--eEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchh
Confidence            57899999999754 466553322 222344  78999999999999999999999999999999999999888874444


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                      ...+.... ...|+++++||.|+.....       ...+....+..++...++ ++++|||++|.||+++|++|++.+.+
T Consensus        96 ~~~~~~~~~~~~~i~iv~nk~Dl~~~~~-------~~~i~~~~~~~~~~~~~~-~~~~~SA~~g~gv~e~~~~l~~~l~~  167 (169)
T d1upta_          96 VAMLEEEELRKAILVVFANKQDMEQAMT-------SSEMANSLGLPALKDRKW-QIFKTSATKGTGLDEAMEWLVETLKS  167 (169)
T ss_dssp             HHHHTCGGGTTCEEEEEEECTTSTTCCC-------HHHHHHHHTGGGCTTSCE-EEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhhhhhhccccceEEEEEeecccccccc-------HHHHHHHHHHHHHhcCCC-EEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            44444433 5799999999999976431       001122222233444555 89999999999999999999998754

>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=99.71  E-value=1.3e-16  Score=109.17  Aligned_cols=137  Identities=12%  Similarity=0.141  Sum_probs=102.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|. .+.||.+....   ......+...+||++|...+...+..+++.++++++++|.+++.++.... .|
T Consensus        15 SLln~l~~~~~~-~~~~t~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~-~~   89 (166)
T d2qtvb1          15 TLLHMLKNDRLA-TLQPTWHPTSE---ELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEAR-VE   89 (166)
T ss_dssp             HHHHHHHHSCCC-CCCCCCSCEEE---EECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHH-HH
T ss_pred             HHHHHHhCCCCC-eeeceeeEeEE---EeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhh-HH
Confidence            578899998885 56888874332   23333467899999999999999999999999999999999999998884 44


Q ss_pred             HHHHhhcC--CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHH------------HHhCCCeEEEeccCCCCcH
Q 030337           83 IPELRHYA--PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELR------------KLIGSPAYIECSSKTQQNV  148 (179)
Q Consensus        83 ~~~i~~~~--~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~e~Sa~~~~~i  148 (179)
                      ........  .+.|+++++||.|+....            ...+..+..            ...++ .+++|||++|.||
T Consensus        90 ~~~~~~~~~~~~~~i~i~~~k~d~~~~~------------~~~~i~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~tg~Gv  156 (166)
T d2qtvb1          90 LDALFNIAELKDVPFVILGNKIDAPNAV------------SEAELRSALGLLNTTGSQRIEGQRPV-EVFMCSVVMRNGY  156 (166)
T ss_dssp             HHHHHTCTTTTTCCEEEEEECTTSSSCC------------CHHHHHHHHTCSSCCC---CCSSCCE-EEEEEBTTTTBSH
T ss_pred             HHhhhhhhccCCceEEEEeccccccccC------------CHHHHHHHhhhhhhhHHHhhcccCCC-EEEEeeCCCCCCH
Confidence            44444333  589999999999997532            222222211            11122 6899999999999


Q ss_pred             HHHHHHHHH
Q 030337          149 KAVFDAAIK  157 (179)
Q Consensus       149 ~~~f~~l~~  157 (179)
                      +++|+||.+
T Consensus       157 ~e~~~~l~~  165 (166)
T d2qtvb1         157 LEAFQWLSQ  165 (166)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhC
Confidence            999999864

>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=99.67  E-value=5.9e-16  Score=108.07  Aligned_cols=140  Identities=15%  Similarity=0.195  Sum_probs=97.7

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKW   82 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~   82 (179)
                      +|+.+++.+.|... .|+.+... ..+..++  ..+..||+.|+..+...+..+++..+++++++|++++..+......+
T Consensus        28 sLl~~l~~~~~~~~-~~~~~~~~-~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~  103 (186)
T d1f6ba_          28 TLLHMLKDDRLGQH-VPTLHPTS-EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEEL  103 (186)
T ss_dssp             HHHHHHSCC-------CCCCCSC-EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHH
T ss_pred             HHHHHHhCCCCcce-ecccccce-eEEEecc--cccccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHH
Confidence            47888888888654 56665433 3455666  56889999999999999999999999999999999999998875555


Q ss_pred             HHHHhhcC-CCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHH-----------------hCCCeEEEeccCC
Q 030337           83 IPELRHYA-PGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKL-----------------IGSPAYIECSSKT  144 (179)
Q Consensus        83 ~~~i~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~e~Sa~~  144 (179)
                      ........ .+.|+++++||.|+...            .+..+..+....                 .+. .+++|||++
T Consensus       104 ~~~~~~~~~~~~~~li~~~K~D~~~~------------~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~t  170 (186)
T d1f6ba_         104 DSLMTDETIANVPILILGNKIDRPEA------------ISEERLREMFGLYGQTTGKGSVSLKELNARPL-EVFMCSVLK  170 (186)
T ss_dssp             HHHHTCGGGTTSCEEEEEECTTSTTC------------CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCE-EEEECBTTT
T ss_pred             HHhhcccccCCCceEEEEeccCcccc------------CCHHHHHHHHhhcccchhhhhhhHHHhhcCCC-EEEEEeCCC
Confidence            55544333 68999999999998653            233333332221                 122 689999999


Q ss_pred             CCcHHHHHHHHHHHH
Q 030337          145 QQNVKAVFDAAIKVV  159 (179)
Q Consensus       145 ~~~i~~~f~~l~~~i  159 (179)
                      |.||+++|+||++++
T Consensus       171 g~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         171 RQGYGEGFRWMAQYI  185 (186)
T ss_dssp             TBSHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999998764

>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=99.64  E-value=2.6e-16  Score=113.96  Aligned_cols=152  Identities=15%  Similarity=0.099  Sum_probs=102.6

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChh---------
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKA---------   73 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~---------   73 (179)
                      +|++||..+.|    .||+|.. ...+.+++  +.+++||++|++.++..|..++++++++++++|+++..         
T Consensus        21 sll~~~~~~~~----~pTiG~~-~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~   93 (221)
T d1azta2          21 TIVKQMRILHV----VLTSGIF-ETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQT   93 (221)
T ss_dssp             HHHHHHHHHHC----CCCCSCE-EEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCS
T ss_pred             HHHHHHhcCCc----CCCCCeE-EEEEEECc--EEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccch
Confidence            46778876654    6899933 34455666  88999999999999999999999999999999998653         


Q ss_pred             -hHHHHHHHHHHHHhhcC-CCCcEEEEEeCCCcccccccc------------c---CCC-----CCccccHHHHHHH---
Q 030337           74 -SYENVAKKWIPELRHYA-PGVPIILVGTKLDLRDDKQFF------------I---DHP-----GAVPITTAQGEEL---  128 (179)
Q Consensus        74 -s~~~~~~~~~~~i~~~~-~~~piilv~nK~D~~~~~~~~------------~---~~~-----~~~~~~~~~~~~~---  128 (179)
                       ...+....|...+.... .++|++|+|||+|+..+....            .   ...     .........+..+   
T Consensus        94 ~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~  173 (221)
T d1azta2          94 NRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRD  173 (221)
T ss_dssp             BHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHHHHHHHHH
Confidence             33333355655555544 689999999999996543110            0   000     0111112233222   


Q ss_pred             --HHHhC-------CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          129 --RKLIG-------SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       129 --~~~~~-------~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                        .....       ....+++||.++.||..+|+.+.+.|++
T Consensus       174 ~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         174 EFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             HHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             HHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHH
Confidence              22111       1135689999999999999998777764

>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=99.57  E-value=5.7e-15  Score=103.25  Aligned_cols=115  Identities=15%  Similarity=0.103  Sum_probs=77.0

Q ss_pred             eEEEEEEEeCCCCcccccc-------CcccccCccEEEEEEeCCChh--hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           34 STVNLGLWDTAGQEDYNRL-------RPLSYRGADVFILAFSLISKA--SYENVAKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~-------~~~~~~~~~~~i~v~d~~~~~--s~~~~~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      ....+++|||||.......       ....+..++++++++|.....  +.... ..|+........+.|+++|+||+|+
T Consensus        47 ~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~-~~~~~~~~~~~~~~p~iiv~NK~D~  125 (180)
T d1udxa2          47 EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETL-RKEVGAYDPALLRRPSLVALNKVDL  125 (180)
T ss_dssp             SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHH-HHHHHHHCHHHHHSCEEEEEECCTT
T ss_pred             CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhh-hhhhhccccccchhhhhhhhhhhhh
Confidence            3356889999995432211       123467899999999987543  33333 3343333222236899999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ....            ..+...+.....+. +++.+||++|.||+++++.|.+.+-..
T Consensus       126 ~~~~------------~~~~~~~~~~~~~~-~~~~iSA~tg~gid~L~~~i~~~l~~~  170 (180)
T d1udxa2         126 LEEE------------AVKALADALAREGL-AVLPVSALTGAGLPALKEALHALVRST  170 (180)
T ss_dssp             SCHH------------HHHHHHHHHHTTTS-CEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             hhHH------------HHHHHHHHHHhcCC-eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            6533            12333444455566 899999999999999999998877543

>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=99.56  E-value=1.1e-15  Score=104.83  Aligned_cols=136  Identities=16%  Similarity=0.208  Sum_probs=94.2

Q ss_pred             eeehhhhhCCCC-CcccCc-eeeceeeEEEECCeEEEEEEEeCCCCcccccc--------CcccccCccEEEEEEeCCCh
Q 030337            3 FIYIICNYSLGK-QDYVPT-VFDNFSANVVVDGSTVNLGLWDTAGQEDYNRL--------RPLSYRGADVFILAFSLISK   72 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt-~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~~~~i~v~d~~~~   72 (179)
                      +|+.+++..... ..+.|. ........+...+  ..+.+||++|.......        ...++++++++++++|..++
T Consensus        16 sLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~   93 (161)
T d2gj8a1          16 SLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT   93 (161)
T ss_dssp             HHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTC
T ss_pred             HHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccc
Confidence            366777755543 222333 2233334455555  67889999997554322        23457899999999999999


Q ss_pred             hhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHH
Q 030337           73 ASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVF  152 (179)
Q Consensus        73 ~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  152 (179)
                      .+++.. ..|...+.......|+++|+||+|+.++..         ...        +..+. +++++||++|.||++++
T Consensus        94 ~~~~~~-~~~~~~~~~~~~~~~iilv~NK~Dl~~~~~---------~~~--------~~~~~-~~~~iSAk~~~gi~~L~  154 (161)
T d2gj8a1          94 DAVDPA-EIWPEFIARLPAKLPITVVRNKADITGETL---------GMS--------EVNGH-ALIRLSARTGEGVDVLR  154 (161)
T ss_dssp             CCCSHH-HHCHHHHHHSCTTCCEEEEEECHHHHCCCC---------EEE--------EETTE-EEEECCTTTCTTHHHHH
T ss_pred             cchhhh-hhhhhhhhhcccccceeeccchhhhhhhHH---------HHH--------HhCCC-cEEEEECCCCCCHHHHH
Confidence            888776 566666666656899999999999965432         011        12234 89999999999999999


Q ss_pred             HHHHHHH
Q 030337          153 DAAIKVV  159 (179)
Q Consensus       153 ~~l~~~i  159 (179)
                      ++|.+.+
T Consensus       155 ~~l~~~l  161 (161)
T d2gj8a1         155 NHLKQSM  161 (161)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhhC
Confidence            9998763

>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=99.55  E-value=9e-15  Score=104.43  Aligned_cols=104  Identities=13%  Similarity=0.120  Sum_probs=76.4

Q ss_pred             eeehhhhhCCCCCcccCceeeceeeEEEECCeEEEEEEEeCCCCcccc-ccCcccccCccEEEEEEeCCChhhH-HHHHH
Q 030337            3 FIYIICNYSLGKQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYN-RLRPLSYRGADVFILAFSLISKASY-ENVAK   80 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~~~~i~v~d~~~~~s~-~~~~~   80 (179)
                      +|+.+++.+.|...+ ||++..+......++..+.+.+||++|++.++ ..+..+++.++++++|+|+++..++ .+...
T Consensus        15 sLl~~l~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~   93 (207)
T d2fh5b1          15 LLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAE   93 (207)
T ss_dssp             HHHHHHHHSCCCCBC-CCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCccc-CCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHHHHH
Confidence            478899999997764 77776554333235567889999999999875 4677888999999999999998764 44423


Q ss_pred             HHHHHHhh---cCCCCcEEEEEeCCCcccc
Q 030337           81 KWIPELRH---YAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        81 ~~~~~i~~---~~~~~piilv~nK~D~~~~  107 (179)
                      .|...+..   ....+|++||+||+|++..
T Consensus        94 ~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          94 FLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             HHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            33333332   2246899999999999753

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.53  E-value=1.9e-14  Score=99.70  Aligned_cols=140  Identities=20%  Similarity=0.140  Sum_probs=86.4

Q ss_pred             eeehhhhhCCCC--CcccCceeeceeeEEEECCeEEEEEEEeCCCCccccc---------cCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGK--QDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR---------LRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++.....  .++.++........+..++  ..+.+||++|......         ....++..+|+++++.|.++
T Consensus        15 sLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~   92 (171)
T d1mkya1          15 TLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKR   92 (171)
T ss_dssp             HHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTT
T ss_pred             HHHHHHhCCCcceecccCceeeccccccccccc--cccccccccceeeeeccccccccccccccccccCcEEEEeecccc
Confidence            356676654432  2233332333333343444  6789999999533221         12234678999999999887


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      .......  .+...++..  +.|+++|+||+|+..+.            ..+...++. ..+...++++||++|.|++++
T Consensus        93 ~~~~~~~--~~~~~l~~~--~~pviiv~NK~Dl~~~~------------~~~~~~~~~-~~~~~~~i~iSAk~g~gid~L  155 (171)
T d1mkya1          93 GITKEDE--SLADFLRKS--TVDTILVANKAENLREF------------EREVKPELY-SLGFGEPIPVSAEHNINLDTM  155 (171)
T ss_dssp             CCCHHHH--HHHHHHHHH--TCCEEEEEESCCSHHHH------------HHHTHHHHG-GGSSCSCEECBTTTTBSHHHH
T ss_pred             ccccccc--ccccccccc--cccccccchhhhhhhhh------------hhHHHHHHH-hcCCCCeEEEecCCCCCHHHH
Confidence            7666543  556666655  68999999999996422            222222332 245557899999999999999


Q ss_pred             HHHHHHHHhC
Q 030337          152 FDAAIKVVLQ  161 (179)
Q Consensus       152 f~~l~~~i~~  161 (179)
                      +++|++.+-+
T Consensus       156 ~~~i~~~l~e  165 (171)
T d1mkya1         156 LETIIKKLEE  165 (171)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHhCCC
Confidence            9999997754

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.41  E-value=1.5e-12  Score=88.69  Aligned_cols=134  Identities=15%  Similarity=0.130  Sum_probs=84.0

Q ss_pred             eeehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccc-c--------CcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNR-L--------RPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~--------~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.+++....  ......+........+..++  ..+.+|||+|...-.. .        ....+.++|++++|+|.++
T Consensus        15 SLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~   92 (160)
T d1xzpa2          15 TLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASS   92 (160)
T ss_dssp             HHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTS
T ss_pred             HHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCC
Confidence            45666665432  12222222233344555566  6788999999532111 1        1113578999999999999


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      +...+..  .+...+    ...|+++++||.|+.+..            ..++..... ..+ .+++++||++|.||+++
T Consensus        93 ~~~~~~~--~~~~~~----~~~~~i~~~~k~d~~~~~------------~~~~~~~~~-~~~-~~~~~vSA~~g~gi~~L  152 (160)
T d1xzpa2          93 PLDEEDR--KILERI----KNKRYLVVINKVDVVEKI------------NEEEIKNKL-GTD-RHMVKISALKGEGLEKL  152 (160)
T ss_dssp             CCCHHHH--HHHHHH----TTSSEEEEEEECSSCCCC------------CHHHHHHHH-TCS-TTEEEEEGGGTCCHHHH
T ss_pred             Ccchhhh--hhhhhc----ccccceeeeeeccccchh------------hhHHHHHHh-CCC-CcEEEEECCCCCCHHHH
Confidence            8877655  222222    357899999999997632            222222211 223 37899999999999999


Q ss_pred             HHHHHHH
Q 030337          152 FDAAIKV  158 (179)
Q Consensus       152 f~~l~~~  158 (179)
                      ++.|.++
T Consensus       153 ~~~I~ke  159 (160)
T d1xzpa2         153 EESIYRE  159 (160)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9998764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.37  E-value=5e-12  Score=88.23  Aligned_cols=140  Identities=19%  Similarity=0.167  Sum_probs=83.6

Q ss_pred             eehhhhhCCC--CCcccCceeeceeeEEEECCeEEEEEEEeCCCCccccccC------------cccccCccEEEEEEeC
Q 030337            4 IYIICNYSLG--KQDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLR------------PLSYRGADVFILAFSL   69 (179)
Q Consensus         4 l~~~~~~~~f--~~~~~pt~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~------------~~~~~~~~~~i~v~d~   69 (179)
                      |+.++++..-  ..++.+|........+..++  ..+.++|++|.......+            ...++.+|++++|+|+
T Consensus        24 Lin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~  101 (186)
T d1mkya2          24 LFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDA  101 (186)
T ss_dssp             HHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEET
T ss_pred             HHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEeecc
Confidence            5566665432  23333443333344556676  457888999965433222            2235779999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHH----HhCCCeEEEeccCCC
Q 030337           70 ISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRK----LIGSPAYIECSSKTQ  145 (179)
Q Consensus        70 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~e~Sa~~~  145 (179)
                      ..+..-+.  ..+...+...  +.|+++|+||+|+.....          ....+..+..+    ..+..+++.+||++|
T Consensus       102 ~~~~~~~~--~~~~~~~~~~--~~~~i~v~nK~D~~~~~~----------~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g  167 (186)
T d1mkya2         102 TQGITRQD--QRMAGLMERR--GRASVVVFNKWDLVVHRE----------KRYDEFTKLFREKLYFIDYSPLIFTSADKG  167 (186)
T ss_dssp             TTCCCHHH--HHHHHHHHHT--TCEEEEEEECGGGSTTGG----------GCHHHHHHHHHHHCGGGTTSCEEECBTTTT
T ss_pred             cccchhhH--HHHHHHHHHc--CCceeeeccchhhhcchh----------hhhhhHHHHHHHHhcccCCCeEEEEeCCCC
Confidence            87655443  2445555544  689999999999865432          22222222222    234457899999999


Q ss_pred             CcHHHHHHHHHHHH
Q 030337          146 QNVKAVFDAAIKVV  159 (179)
Q Consensus       146 ~~i~~~f~~l~~~i  159 (179)
                      .|++++++.|.+.+
T Consensus       168 ~gv~~L~~~i~~~~  181 (186)
T d1mkya2         168 WNIDRMIDAMNLAY  181 (186)
T ss_dssp             BSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999996643

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.37  E-value=1.9e-12  Score=93.60  Aligned_cols=122  Identities=17%  Similarity=0.204  Sum_probs=80.5

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccC
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~  113 (179)
                      ....+.++||||++.|.......+..+|++|+|+|+.+.-..+..  ..+..+...  +.|+++|.||+|+.........
T Consensus        68 ~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~--~~~~~~~~~--~~p~iivlNK~D~~~~~~~~~~  143 (227)
T d1g7sa4          68 TLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQ--EALNILRMY--RTPFVVAANKIDRIHGWRVHEG  143 (227)
T ss_dssp             TCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHH--HHHHHHHHT--TCCEEEEEECGGGSTTCCCCTT
T ss_pred             cccccccccccceecccccchhcccccceEEEEEecccCcccchh--HHHHHhhcC--CCeEEEEEECccCCCchhhhhh
Confidence            335688999999999988888889999999999999986555543  334444444  6899999999999764421000


Q ss_pred             C-------CCCccccH---HHHH----HHHHH-------------hCCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          114 H-------PGAVPITT---AQGE----ELRKL-------------IGSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       114 ~-------~~~~~~~~---~~~~----~~~~~-------------~~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      .       .....+..   +...    .+.+.             .+..+++.+||++|.|++++++.+....
T Consensus       144 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~  216 (227)
T d1g7sa4         144 RPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLA  216 (227)
T ss_dssp             CCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHH
Confidence            0       00000000   1111    11111             1123678999999999999999887754

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.33  E-value=1.7e-12  Score=90.51  Aligned_cols=114  Identities=19%  Similarity=0.189  Sum_probs=81.2

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.++|++|+..|.......+..+|++++|+|+++....+.. ..| ..+...  +.|+++|.||+|+.....      
T Consensus        59 ~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~-~~~-~~~~~~--~~p~iiv~NKiD~~~~~~------  128 (179)
T d1wb1a4          59 YRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTG-EHM-LILDHF--NIPIIVVITKSDNAGTEE------  128 (179)
T ss_dssp             EEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHH-HHH-HHHHHT--TCCBCEEEECTTSSCHHH------
T ss_pred             ccccccccccccccccchhhhhhhccccccccccccccchhhh-hhh-hhhhhc--CCcceeccccccccCHHH------
Confidence            6788999999998888777788999999999999987655443 223 333333  689999999999975331      


Q ss_pred             CCccccHHHHHHHHHHh-C--CCeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          116 GAVPITTAQGEELRKLI-G--SPAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~-~--~~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                        .....+....+.+.. +  ..+++.+||++|.|++++++.++..+-+
T Consensus       129 --~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         129 --IKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             --HHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCc
Confidence              000112222333321 2  2378999999999999999999887643

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.22  E-value=2.5e-11  Score=85.58  Aligned_cols=115  Identities=16%  Similarity=0.111  Sum_probs=78.3

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDH  114 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~  114 (179)
                      ...+.+.||||++.|......-+..+|++++|.|+.+...-+...+. +..+... .-.+++++.||+|+.+...     
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~-~~~~~~~-~~~~iiv~inK~D~~d~~~-----  149 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREH-LMALQII-GQKNIIIAQNKIELVDKEK-----  149 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHH-HHHHHHH-TCCCEEEEEECGGGSCHHH-----
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHH-HHHHHHh-cCccceeeeecccchhhHH-----
Confidence            46789999999999988777778899999999999986432322122 2233332 1346889999999976432     


Q ss_pred             CCCccccHHHHHHHHHHhC--CCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          115 PGAVPITTAQGEELRKLIG--SPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                         .....+...++.+..+  ..+++.+||++|.|++++++.+.+.+
T Consensus       150 ---~~~~~~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         150 ---ALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             ---HHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             ---HHHHHHHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence               0011223333333322  13689999999999999999987754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.22  E-value=2.5e-11  Score=84.34  Aligned_cols=108  Identities=18%  Similarity=0.139  Sum_probs=69.0

Q ss_pred             EEEEeCCCCcccc---------------ccCcccccCccEEEEEEeCCChhhHHHHH---------HHHHHHHhhcCCCC
Q 030337           38 LGLWDTAGQEDYN---------------RLRPLSYRGADVFILAFSLISKASYENVA---------KKWIPELRHYAPGV   93 (179)
Q Consensus        38 ~~i~D~~G~~~~~---------------~~~~~~~~~~~~~i~v~d~~~~~s~~~~~---------~~~~~~i~~~~~~~   93 (179)
                      +.+|||||.....               ......++.+|++++|+|.+.+.......         ..+.+.+...  +.
T Consensus        45 ~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~--~~  122 (184)
T d2cxxa1          45 HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLREL--DI  122 (184)
T ss_dssp             EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHT--TC
T ss_pred             ceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHc--CC
Confidence            5789999952211               11223467899999999998654332210         1223333333  78


Q ss_pred             cEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC------CeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337           94 PIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS------PAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus        94 piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                      |+++|+||+|+.....             .....+.+..+.      ..++++||++|.||+++++++.+.+-
T Consensus       123 p~iiv~NK~D~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~  182 (184)
T d2cxxa1         123 PTIVAVNKLDKIKNVQ-------------EVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIR  182 (184)
T ss_dssp             CEEEEEECGGGCSCHH-------------HHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CEEEEEeeeehhhhHH-------------HHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHcc
Confidence            9999999999864321             222223333322      13788999999999999999988764

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.22  E-value=2.7e-11  Score=86.06  Aligned_cols=115  Identities=14%  Similarity=0.076  Sum_probs=76.9

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      ..+.+.|+||++.|......-+..+|++|+|+|+.+.-.-......| ..+... .-.|++++.||+|+.+...      
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~-~~~~~~-~i~~iIV~vNK~Dl~~~~~------  157 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHF-VALGII-GVKNLIIVQNKVDVVSKEE------  157 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHH-HHHHHT-TCCCEEEEEECGGGSCHHH------
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHH-HHHHHc-CCceeeeccccCCCccchH------
Confidence            46899999999999877677788999999999998863112221223 223322 2358999999999976432      


Q ss_pred             CCccccHHHHHHHHHHhC--CCeEEEeccCCCCcHHHHHHHHHHHHh
Q 030337          116 GAVPITTAQGEELRKLIG--SPAYIECSSKTQQNVKAVFDAAIKVVL  160 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~f~~l~~~i~  160 (179)
                        ..........+.....  ..+++.+||++|.||+++++.+...+-
T Consensus       158 --~~~~~~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         158 --ALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             --HHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             --HHHHHHHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCC
Confidence              0011122222222221  236899999999999999999887654

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.10  E-value=4.2e-11  Score=83.44  Aligned_cols=111  Identities=12%  Similarity=0.151  Sum_probs=69.0

Q ss_pred             EEEEEeCCCCccccc----cCc---ccccCccEEEEEEeCCChhhHHHH-----HHHHHHHHhhcCCCCcEEEEEeCCCc
Q 030337           37 NLGLWDTAGQEDYNR----LRP---LSYRGADVFILAFSLISKASYENV-----AKKWIPELRHYAPGVPIILVGTKLDL  104 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~----~~~---~~~~~~~~~i~v~d~~~~~s~~~~-----~~~~~~~i~~~~~~~piilv~nK~D~  104 (179)
                      .+.+|||||..+...    +..   ..+..++.++++++..........     ...+.........+.|+++|+||+|+
T Consensus        50 ~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl  129 (185)
T d1lnza2          50 SFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDM  129 (185)
T ss_dssp             EEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTS
T ss_pred             EEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccch
Confidence            578999999532222    111   224568888888877654322211     01111111111246899999999999


Q ss_pred             ccccccccCCCCCccccHHHHHHHHHHh--CCCeEEEeccCCCCcHHHHHHHHHHHHhCC
Q 030337          105 RDDKQFFIDHPGAVPITTAQGEELRKLI--GSPAYIECSSKTQQNVKAVFDAAIKVVLQP  162 (179)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~~~~i~~~f~~l~~~i~~~  162 (179)
                      ....              +....+.+.+  +. +++.+||++|.|++++++.+.+.+-+.
T Consensus       130 ~~~~--------------~~~~~~~~~~~~~~-~v~~iSA~~g~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         130 PEAA--------------ENLEAFKEKLTDDY-PVFPISAVTREGLRELLFEVANQLENT  174 (185)
T ss_dssp             TTHH--------------HHHHHHHHHCCSCC-CBCCCSSCCSSTTHHHHHHHHHHHTSC
T ss_pred             HhHH--------------HHHHHHHHHhccCC-cEEEEECCCCCCHHHHHHHHHHhhhhC
Confidence            6422              2334444443  33 789999999999999999999987543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.09  E-value=2.2e-10  Score=80.37  Aligned_cols=89  Identities=19%  Similarity=0.279  Sum_probs=63.1

Q ss_pred             cccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh---
Q 030337           56 SYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI---  132 (179)
Q Consensus        56 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  132 (179)
                      .+.++++++++.|++++..-+.  ..+++.++..  +.|+++|+||+|+.+...           ..+....+.+.+   
T Consensus       102 ~~~~~~~vi~viD~~~~~~~~~--~~~~~~l~~~--~~piivv~NK~D~~~~~~-----------~~~~~~~~~~~l~~~  166 (195)
T d1svia_         102 TREELKAVVQIVDLRHAPSNDD--VQMYEFLKYY--GIPVIVIATKADKIPKGK-----------WDKHAKVVRQTLNID  166 (195)
T ss_dssp             HCTTEEEEEEEEETTSCCCHHH--HHHHHHHHHT--TCCEEEEEECGGGSCGGG-----------HHHHHHHHHHHHTCC
T ss_pred             cccchhhhhhhhhccccccccc--cccccccccc--cCcceechhhccccCHHH-----------HHHHHHHHHHHhccc
Confidence            4567899999999987654443  3555566654  689999999999865331           122233333332   


Q ss_pred             CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          133 GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       133 ~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ...+++.+||++|.|+++++++|.+.+
T Consensus       167 ~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         167 PEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            334789999999999999999998876

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.08  E-value=7.3e-11  Score=83.27  Aligned_cols=120  Identities=17%  Similarity=0.124  Sum_probs=82.3

Q ss_pred             EECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccc
Q 030337           30 VVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQ  109 (179)
Q Consensus        30 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~  109 (179)
                      .+......+.+.||||+..|.......+..+|++++|+|+.+...-|.. ..|. .+... .-.|+|++.||+|+..+..
T Consensus        60 ~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~-~~~~-~a~~~-~~~~iIv~iNK~D~~~~~~  136 (196)
T d1d2ea3          60 EYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTR-EHLL-LARQI-GVEHVVVYVNKADAVQDSE  136 (196)
T ss_dssp             EEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHH-HHHH-HHHHT-TCCCEEEEEECGGGCSCHH
T ss_pred             EEEeceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHH-HHHH-HHHHh-cCCcEEEEEecccccccHH
Confidence            3444446789999999999888777788999999999999987655543 3332 33332 2357999999999965321


Q ss_pred             cccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCC----------CcHHHHHHHHHHHH
Q 030337          110 FFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQ----------QNVKAVFDAAIKVV  159 (179)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~----------~~i~~~f~~l~~~i  159 (179)
                             ....-..+...+....+.    .+++.+||++|          .++.++++.+...+
T Consensus       137 -------~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         137 -------MVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             -------HHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             -------HHHHHHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence                   000112244555555554    46899999998          58888888876653

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.01  E-value=7.1e-10  Score=76.38  Aligned_cols=142  Identities=14%  Similarity=0.030  Sum_probs=87.3

Q ss_pred             eeehhhhhCCCC-CcccCcee-eceeeEEEECCeEEEEEEEeCCCCcc---------ccccCcccccCccEEEEEEeCCC
Q 030337            3 FIYIICNYSLGK-QDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQED---------YNRLRPLSYRGADVFILAFSLIS   71 (179)
Q Consensus         3 ~l~~~~~~~~f~-~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~~~~i~v~d~~~   71 (179)
                      +|+.++++.... ..+.++.. .........+.  ..+..||++|...         ...........+++++++.|..+
T Consensus        20 SLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~   97 (179)
T d1egaa1          20 TLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR   97 (179)
T ss_dssp             HHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC
T ss_pred             HHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccccchhhcceeEEEEecCc
Confidence            356666654432 22222222 22233333444  3456788887432         22233344567888888888776


Q ss_pred             hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHH
Q 030337           72 KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIECSSKTQQNVKAV  151 (179)
Q Consensus        72 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  151 (179)
                      ......   .+...+.+.  ..|+++|.||.|......          ........+...++..+++++||++|.|++++
T Consensus        98 ~~~~~~---~~~~~l~~~--~~~~i~v~~k~d~~~~~~----------~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L  162 (179)
T d1egaa1          98 WTPDDE---MVLNKLREG--KAPVILAVNKVDNVQEKA----------DLLPHLQFLASQMNFLDIVPISAETGLNVDTI  162 (179)
T ss_dssp             CCHHHH---HHHHHHHSS--SSCEEEEEESTTTCCCHH----------HHHHHHHHHHTTSCCSEEEECCTTTTTTHHHH
T ss_pred             cchhHH---HHHHHhhhc--cCceeeeeeeeeccchhh----------hhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHH
Confidence            543332   222333332  578999999999876442          33455566667777778999999999999999


Q ss_pred             HHHHHHHHhC
Q 030337          152 FDAAIKVVLQ  161 (179)
Q Consensus       152 f~~l~~~i~~  161 (179)
                      ++.+.+.+-+
T Consensus       163 ~~~i~~~lpe  172 (179)
T d1egaa1         163 AAIVRKHLPE  172 (179)
T ss_dssp             HHHHHTTCCB
T ss_pred             HHHHHHhCCC
Confidence            9999887643

>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=98.89  E-value=2e-09  Score=77.15  Aligned_cols=105  Identities=18%  Similarity=0.161  Sum_probs=71.4

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccccccccC
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDDKQFFID  113 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~~~~~~~  113 (179)
                      ...+.|.|+||++.|......-...+|++|+|+|+.+...-+.. ..|. .+...  ++| ++++.||+|+.+...    
T Consensus        88 ~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~-e~~~-~~~~~--gv~~iiv~vNK~D~~~~~~----  159 (222)
T d1zunb3          88 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTR-RHSY-IASLL--GIKHIVVAINKMDLNGFDE----  159 (222)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHH-HHHH-HHHHT--TCCEEEEEEECTTTTTSCH----
T ss_pred             ceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchH-HHHH-HHHHc--CCCEEEEEEEccccccccc----
Confidence            35789999999999988777788999999999999987655543 3332 22222  444 889999999976332    


Q ss_pred             CCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHH
Q 030337          114 HPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVK  149 (179)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~  149 (179)
                        ........+...+.+..+.    .+++.+||++|.|+.
T Consensus       160 --~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         160 --RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             --HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             --eehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence              0000111233445555543    257899999999884

>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=98.83  E-value=2e-09  Score=76.16  Aligned_cols=104  Identities=19%  Similarity=0.157  Sum_probs=69.2

Q ss_pred             EEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCc-EEEEEeCCCcccc
Q 030337           29 VVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVP-IILVGTKLDLRDD  107 (179)
Q Consensus        29 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~~  107 (179)
                      +.+++  .++.|.||||+..|......-+..+|++|+|+|+.+....+.. ..| ..+...  ++| ++++.||+|+.+.
T Consensus        62 ~~~~~--~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~-~~~-~~~~~~--gi~~iiv~iNK~D~~~~  135 (204)
T d2c78a3          62 YETAK--RHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTR-EHI-LLARQV--GVPYIVVFMNKVDMVDD  135 (204)
T ss_dssp             EECSS--CEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHH-HHH-HHHHHT--TCCCEEEEEECGGGCCC
T ss_pred             EEeCC--eEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHH-HHH-HHHHHc--CCCeEEEEEEecccCCC
Confidence            33455  5788999999999988877888999999999999988777765 444 333333  565 7888999999653


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCC
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQ  145 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~  145 (179)
                      ..       ....-..+...+....+.    .+++..|+..+
T Consensus       136 ~~-------~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa~~~  170 (204)
T d2c78a3         136 PE-------LLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLA  170 (204)
T ss_dssp             HH-------HHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHH
T ss_pred             HH-------HHHHHHHHHHHHHHhcCCCcccceeeeeechhh
Confidence            21       000112334444444433    35788777543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.73  E-value=5.7e-09  Score=73.41  Aligned_cols=98  Identities=10%  Similarity=0.057  Sum_probs=63.9

Q ss_pred             eeehhhhhCCCCCcccCcee-eceeeEEEECCeEEEEEEEeCCCCccccccCccc----ccCccEEEEEEeCCC-hhhHH
Q 030337            3 FIYIICNYSLGKQDYVPTVF-DNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLS----YRGADVFILAFSLIS-KASYE   76 (179)
Q Consensus         3 ~l~~~~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~~~~i~v~d~~~-~~s~~   76 (179)
                      +|+.+++++.+.+.    .. +.....  ++.....+.+||+||++.+...+..+    ...++.+++++|..+ ..+++
T Consensus        18 SLln~l~~~~~~~~----tt~~~~~~~--~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~   91 (209)
T d1nrjb_          18 SLLTLLTTDSVRPT----VVSQEPLSA--ADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLT   91 (209)
T ss_dssp             HHHHHHHHSSCCCB----CCCSSCEEE--TTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCH
T ss_pred             HHHHHHhCCCCCCe----EEecceEEE--EEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEecccccHH
Confidence            47788888877543    22 111222  23333568899999999877765554    345688888888775 55666


Q ss_pred             HHHHHHH----HHHhhcC-CCCcEEEEEeCCCcccc
Q 030337           77 NVAKKWI----PELRHYA-PGVPIILVGTKLDLRDD  107 (179)
Q Consensus        77 ~~~~~~~----~~i~~~~-~~~piilv~nK~D~~~~  107 (179)
                      .. ..|+    ..+.... .++|+++|+||+|+.+.
T Consensus        92 ~~-~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          92 TT-AEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             HH-HHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             HH-HHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            55 3443    3333333 48999999999999763

>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=98.70  E-value=1e-07  Score=70.08  Aligned_cols=75  Identities=20%  Similarity=0.277  Sum_probs=60.5

Q ss_pred             eEEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           27 ANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        27 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      ..+.+++  .+++|.||||+..|.......++-+|++|+|+|..+...-+-. ..| +..++.  ++|.+++.||+|...
T Consensus        64 ~~~~~~~--~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~-~~w-~~a~~~--~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          64 TTCFWKD--HRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSE-TVW-RQAEKY--KVPRIAFANKMDKTG  137 (276)
T ss_dssp             EEEEETT--EEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHH-HHH-HHHHTT--TCCEEEEEECTTSTT
T ss_pred             eeeccCC--eEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHH-HHH-HHHHHc--CCCEEEEEecccccc
Confidence            3344566  7799999999999999888889999999999999998776655 455 344444  799999999999976


Q ss_pred             c
Q 030337          107 D  107 (179)
Q Consensus       107 ~  107 (179)
                      .
T Consensus       138 a  138 (276)
T d2bv3a2         138 A  138 (276)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=98.64  E-value=1.5e-07  Score=68.86  Aligned_cols=72  Identities=24%  Similarity=0.308  Sum_probs=58.1

Q ss_pred             EEEECCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcc
Q 030337           28 NVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLR  105 (179)
Q Consensus        28 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~  105 (179)
                      .+.+++  .+++++||||+.+|.......++-+|++|+|+|..+....+.. ..| +.+.+.  ++|.+++.||+|..
T Consensus        61 ~~~~~~--~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~-~~~-~~~~~~--~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          61 PLLFRG--HRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTE-RAW-TVAERL--GLPRMVVVTKLDKG  132 (267)
T ss_dssp             EEEETT--EEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHH-HHHHHT--TCCEEEEEECGGGC
T ss_pred             cccccc--cceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhH-HHH-Hhhhhc--cccccccccccccc
Confidence            344566  6789999999999998888889999999999999988776665 444 344444  69999999999985

>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=98.61  E-value=3.8e-08  Score=71.08  Aligned_cols=106  Identities=15%  Similarity=0.115  Sum_probs=70.7

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhh-------HHHHHHHHHHHHhhcCCCCc-EEEEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKAS-------YENVAKKWIPELRHYAPGVP-IILVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s-------~~~~~~~~~~~i~~~~~~~p-iilv~nK~D~~~  106 (179)
                      ..++.|.||||+.+|......-+.-+|++|+|+|+.+..-       .|-. .+|. .....  ++| +|++.||+|+.+
T Consensus        83 ~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~-eh~~-~~~~~--gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3          83 KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTR-EHAL-LAFTL--GVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHH-HHHH-HHHHT--TCCEEEEEEECGGGGT
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHH-HHHH-HHHHc--CCCeEEEEEECCCCCC
Confidence            3789999999999999888888999999999999986421       1222 3332 22222  455 888999999976


Q ss_pred             ccccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          107 DKQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      .+.      .......++...+....+.    ..++.+|+.+|.|+.+
T Consensus       159 ~d~------~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         159 WDE------SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             TCH------HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCH------HHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            331      0000112334445555544    3689999999988643

>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=98.56  E-value=4e-08  Score=70.29  Aligned_cols=111  Identities=14%  Similarity=0.091  Sum_probs=69.4

Q ss_pred             eEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHH------HHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           34 STVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE------NVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        34 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~------~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ..+.+.|.||||++.|......-++-+|++|+|+|+.+...-+      ...+++ ... +...-.+++++.||+|+...
T Consensus        79 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l-~~~-~~~~~~~iIv~iNK~D~~~~  156 (224)
T d1jnya3          79 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHI-ILA-KTMGLDQLIVAVNKMDLTEP  156 (224)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHH-HHH-HHTTCTTCEEEEECGGGSSS
T ss_pred             CCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHH-HHH-HHhCCCceEEEEEcccCCCc
Confidence            3477999999999999998888899999999999999853211      111111 111 11224578999999999742


Q ss_pred             cccccCCCCCccccHHHHHHHHHHhCC----CeEEEeccCCCCcHHH
Q 030337          108 KQFFIDHPGAVPITTAQGEELRKLIGS----PAYIECSSKTQQNVKA  150 (179)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~e~Sa~~~~~i~~  150 (179)
                      ..    .......-......+...++.    ..++.+||..|.|+.+
T Consensus       157 ~~----~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         157 PY----DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TT----CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cc----cHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            21    000000111223344444433    3578999999998853

>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=98.53  E-value=2.5e-07  Score=66.92  Aligned_cols=109  Identities=19%  Similarity=0.149  Sum_probs=57.8

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHH------HHHHHHHHHHhhcCCCC-cEEEEEeCCCccccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYE------NVAKKWIPELRHYAPGV-PIILVGTKLDLRDDK  108 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~------~~~~~~~~~i~~~~~~~-piilv~nK~D~~~~~  108 (179)
                      ..+.+.|+||+..|......-..-+|++++|+|+.+..--+      .....+ ..+...  ++ +++++.||+|+....
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l-~l~~~~--~i~~iiv~iNKmD~~~~~  178 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHA-VLARTQ--GINHLVVVINKMDEPSVQ  178 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-HHHHHT--TCSSEEEEEECTTSTTCS
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHH-HHHHHc--CCCeEEEEEEcCCCCccc
Confidence            57899999999999998888899999999999998742110      111222 122222  34 488999999996422


Q ss_pred             ccccCCCCCc-cccHHHHHHHHHHh-CC-----CeEEEeccCCCCcHHHHH
Q 030337          109 QFFIDHPGAV-PITTAQGEELRKLI-GS-----PAYIECSSKTQQNVKAVF  152 (179)
Q Consensus       109 ~~~~~~~~~~-~~~~~~~~~~~~~~-~~-----~~~~e~Sa~~~~~i~~~f  152 (179)
                      .     ...+ ..-.++...+.+.. +.     .+++.+||++|.||.+++
T Consensus       179 ~-----~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         179 W-----SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             S-----CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             h-----hHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccch
Confidence            1     0000 00011222222222 21     268999999999997653

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.45  E-value=6.4e-07  Score=63.66  Aligned_cols=88  Identities=18%  Similarity=0.208  Sum_probs=63.1

Q ss_pred             cccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh
Q 030337           54 PLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI  132 (179)
Q Consensus        54 ~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (179)
                      +..+.|.|.+++|+++.+|. +...+ ++|+-.....  ++|.+||.||+|+.++.            ..+....+...+
T Consensus         5 RP~vANiD~vliV~s~~~P~~~~~~l-dR~Lv~a~~~--~i~pvIvlnK~DL~~~~------------~~~~~~~~~~~~   69 (225)
T d1u0la2           5 KPHVANVDQVILVVTVKMPETSTYII-DKFLVLAEKN--ELETVMVINKMDLYDED------------DLRKVRELEEIY   69 (225)
T ss_dssp             TTTEESCCEEEEEECSSTTCCCHHHH-HHHHHHHHHT--TCEEEEEECCGGGCCHH------------HHHHHHHHHHHH
T ss_pred             CCCcccCCEEEEEEeCCCCCCCHHHH-HHHHHHHHHc--CCCEEEEEeCcccCCHH------------HHHHHHHhhccc
Confidence            34678999999999999876 55555 7777666555  79999999999996532            122233333332


Q ss_pred             -CCCeEEEeccCCCCcHHHHHHHHH
Q 030337          133 -GSPAYIECSSKTQQNVKAVFDAAI  156 (179)
Q Consensus       133 -~~~~~~e~Sa~~~~~i~~~f~~l~  156 (179)
                       ...+.+.+|++++.|++++...+-
T Consensus        70 ~~~~~v~~vSa~~~~g~~~L~~~l~   94 (225)
T d1u0la2          70 SGLYPIVKTSAKTGMGIEELKEYLK   94 (225)
T ss_dssp             TTTSCEEECCTTTCTTHHHHHHHHS
T ss_pred             ccceeEEEeccccchhHhhHHHHhc
Confidence             224789999999999999887653

>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=98.42  E-value=9.3e-08  Score=72.35  Aligned_cols=71  Identities=18%  Similarity=0.204  Sum_probs=58.5

Q ss_pred             CCeEEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCccc
Q 030337           32 DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRD  106 (179)
Q Consensus        32 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~  106 (179)
                      +++.+.++|.||||+..|.......++-+|++++|+|+.+....+.. ..|.... +.  ++|++++.||+|+..
T Consensus        92 ~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~-~~~~~a~-~~--~~p~i~viNKiDr~~  162 (341)
T d1n0ua2          92 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTE-TVLRQAL-GE--RIKPVVVINKVDRAL  162 (341)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHH-HHHHHHH-HT--TCEEEEEEECHHHHH
T ss_pred             cccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHH-HHHHHHH-Hc--CCCeEEEEECccccc
Confidence            34678999999999999999888889999999999999998777765 4444333 33  699999999999864

>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=98.35  E-value=1.5e-06  Score=59.26  Aligned_cols=89  Identities=11%  Similarity=-0.001  Sum_probs=55.0

Q ss_pred             cCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHh-CCCe
Q 030337           58 RGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLI-GSPA  136 (179)
Q Consensus        58 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  136 (179)
                      ..+..++.+.+..........  .++..+...  ..++++++||+|+.....        .....+...+....+ +..+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~--~~~~~~v~~k~D~~~~~~--------~~~~~~~~~~~l~~~~~~~~  164 (188)
T d1puia_          97 QSLQGLVVLMDIRHPLKDLDQ--QMIEWAVDS--NIAVLVLLTKADKLASGA--------RKAQLNMVREAVLAFNGDVQ  164 (188)
T ss_dssp             TTEEEEEEEEETTSCCCHHHH--HHHHHHHHT--TCCEEEEEECGGGSCHHH--------HHHHHHHHHHHHGGGCSCEE
T ss_pred             hheeEEEEeecccccchhHHH--HHHHHhhhc--cccccchhhhhhccCHHH--------HHHHHHHHHHHHHhhCCCCc
Confidence            345566666666665544443  444454443  678999999999975432        001112222222222 3346


Q ss_pred             EEEeccCCCCcHHHHHHHHHHH
Q 030337          137 YIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       137 ~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      ++.+||++|.||+++++.|.+.
T Consensus       165 ~i~vSA~~g~Gid~L~~~i~~~  186 (188)
T d1puia_         165 VETFSSLKKQGVDKLRQKLDTW  186 (188)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999988654

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.16  E-value=7.8e-07  Score=63.43  Aligned_cols=87  Identities=22%  Similarity=0.213  Sum_probs=62.4

Q ss_pred             cccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHH---HHH
Q 030337           54 PLSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGE---ELR  129 (179)
Q Consensus        54 ~~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~---~~~  129 (179)
                      +....|+|.+++|+++.+|. +...+ ++++-.....  +++.+||.||+|+.++.           ...+...   ...
T Consensus         5 RP~vANiD~~~iV~s~~~P~~~~~~i-dR~Lv~a~~~--~i~pvIvlnK~DL~~~~-----------~~~~~~~~~~~~y   70 (231)
T d1t9ha2           5 RPPICNVDQAVLVFSAVQPSFSTALL-DRFLVLVEAN--DIQPIICITKMDLIEDQ-----------DTEDTIQAYAEDY   70 (231)
T ss_dssp             TTTEECCCEEEEEEESTTTTCCHHHH-HHHHHHHHTT--TCEEEEEEECGGGCCCH-----------HHHHHHHHHHHHH
T ss_pred             CCCccccCEEEEEEECCCCCCCHHHH-HHHHHHHHHc--CCCEEEEEecccccccH-----------HHHHHHHHHHHHH
Confidence            34568999999999999886 55555 6776555544  78999999999997533           1222222   233


Q ss_pred             HHhCCCeEEEeccCCCCcHHHHHHHH
Q 030337          130 KLIGSPAYIECSSKTQQNVKAVFDAA  155 (179)
Q Consensus       130 ~~~~~~~~~e~Sa~~~~~i~~~f~~l  155 (179)
                      ...|. +.+.+|++++.|++++...+
T Consensus        71 ~~~g~-~v~~~Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          71 RNIGY-DVYLTSSKDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTC-CEEECCHHHHTTCTTTGGGG
T ss_pred             hhccc-cceeeecCChhHHHHHHHhh
Confidence            45677 89999999999988776543

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.12  E-value=2.1e-06  Score=62.83  Aligned_cols=88  Identities=18%  Similarity=0.101  Sum_probs=60.7

Q ss_pred             ccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCC
Q 030337           55 LSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGS  134 (179)
Q Consensus        55 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (179)
                      ..++.+|++++|.|+-+|-+..+-  .+.+.+    .+.|+++|.||+|+.+..           . .+.-.+..+..+.
T Consensus        11 ~~i~~~DvIl~V~DaR~P~ss~~~--~l~~~~----~~Kp~IlVlNK~DLv~~~-----------~-~~~w~~~f~~~~~   72 (273)
T d1puja_          11 EKLKLIDIVYELVDARIPMSSRNP--MIEDIL----KNKPRIMLLNKADKADAA-----------V-TQQWKEHFENQGI   72 (273)
T ss_dssp             HHGGGCSEEEEEEETTSTTTTSCH--HHHHHC----SSSCEEEEEECGGGSCHH-----------H-HHHHHHHHHTTTC
T ss_pred             HHHHhCCEEEEEEECCCCCCCCCH--HHHHHH----cCCCeEEEEECccCCchH-----------H-HHHHHHHHHhcCC
Confidence            457899999999999998766532  222222    268999999999995422           1 1122233344455


Q ss_pred             CeEEEeccCCCCcHHHHHHHHHHHHhC
Q 030337          135 PAYIECSSKTQQNVKAVFDAAIKVVLQ  161 (179)
Q Consensus       135 ~~~~e~Sa~~~~~i~~~f~~l~~~i~~  161 (179)
                       ..+.+|++++.++.++...+.+.+.+
T Consensus        73 -~~i~isa~~~~~~~~~~~~~~~~l~~   98 (273)
T d1puja_          73 -RSLSINSVNGQGLNQIVPASKEILQE   98 (273)
T ss_dssp             -CEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             -ccceeecccCCCccccchhhhhhhhh
Confidence             78999999999998888777665543

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.94  E-value=7.8e-06  Score=58.01  Aligned_cols=121  Identities=14%  Similarity=0.007  Sum_probs=65.5

Q ss_pred             EEEEEEeCCCCccccccCcc---c--ccCccEEEEEEeCCC---hhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccc
Q 030337           36 VNLGLWDTAGQEDYNRLRPL---S--YRGADVFILAFSLIS---KASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDD  107 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~---~--~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~  107 (179)
                      ..+.+.|++|+..+......   .  ....++++++.|+..   +..+......-.....+  -..|.++|.||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~--~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLR--LGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH--HTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHH--hCCCceeeeeccccccH
Confidence            35888999999764332211   1  224568899999763   33333221010111111  26899999999999753


Q ss_pred             ccccc----------------CCCCC-ccccHHHHHHHHHHhCCCeEEEeccCCCCcHHHHHHHHHHH
Q 030337          108 KQFFI----------------DHPGA-VPITTAQGEELRKLIGSPAYIECSSKTQQNVKAVFDAAIKV  158 (179)
Q Consensus       108 ~~~~~----------------~~~~~-~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  158 (179)
                      .....                ..+.. ...............+..+++.+||++|.|+++++..|.+.
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            31000                00000 00000000111122344578999999999999999988764

>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=97.18  E-value=0.00032  Score=53.69  Aligned_cols=115  Identities=16%  Similarity=0.153  Sum_probs=64.1

Q ss_pred             EEEEEeCCCCcccccc-----CcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccc
Q 030337           37 NLGLWDTAGQEDYNRL-----RPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFF  111 (179)
Q Consensus        37 ~~~i~D~~G~~~~~~~-----~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~  111 (179)
                      .+.+|||||.......     ....+..+|.++++.|..  .+-++.  .+...+++.  +.|+++|.||+|....... 
T Consensus       108 ~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~--~~~~d~--~l~~~l~~~--~k~~~~V~nK~D~~~~~~~-  180 (400)
T d1tq4a_         108 NVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATR--FKKNDI--DIAKAISMM--KKEFYFVRTKVDSDITNEA-  180 (400)
T ss_dssp             TEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSC--CCHHHH--HHHHHHHHT--TCEEEEEECCHHHHHHHHH-
T ss_pred             eEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCC--CCHHHH--HHHHHHHHc--CCCEEEEEeCcccccchhh-
Confidence            3679999996543221     122356688888877633  233333  455566665  6899999999997432110 


Q ss_pred             cCCCCCccccHH----HH----HHHHHHhCC--CeEEEeccCC--CCcHHHHHHHHHHHHh
Q 030337          112 IDHPGAVPITTA----QG----EELRKLIGS--PAYIECSSKT--QQNVKAVFDAAIKVVL  160 (179)
Q Consensus       112 ~~~~~~~~~~~~----~~----~~~~~~~~~--~~~~e~Sa~~--~~~i~~~f~~l~~~i~  160 (179)
                      .  ........+    ..    ....+..+.  ++++.+|..+  ..++.++.+.+.+.+-
T Consensus       181 ~--~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~  239 (400)
T d1tq4a_         181 D--GEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  239 (400)
T ss_dssp             T--TCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             h--cccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhH
Confidence            0  000111111    11    122222232  3567778765  4688888888877653

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.04  E-value=0.0011  Score=49.24  Aligned_cols=103  Identities=14%  Similarity=0.151  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCC
Q 030337           36 VNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHP  115 (179)
Q Consensus        36 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~  115 (179)
                      +.+.|.+|.|.-.-..   ....-+|.+++|......+..+..+.-.+        ..+=++|.||+|+.+...      
T Consensus       144 ~d~iiiETVG~gq~e~---~~~~~~D~~v~v~~p~~GD~iQ~~k~gil--------E~aDi~vvNKaD~~~~~~------  206 (323)
T d2qm8a1         144 FDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKGIF--------ELADMIAVNKADDGDGER------  206 (323)
T ss_dssp             CCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTTHH--------HHCSEEEEECCSTTCCHH------
T ss_pred             CCeEEEeehhhhhhhh---hhhcccceEEEEeeccchhhhhhhhhhHh--------hhhheeeEeccccccchH------
Confidence            4456777777533211   23455999999999988776665421111        245588899999865432      


Q ss_pred             CCccccHHHHHHHHHHh---------CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          116 GAVPITTAQGEELRKLI---------GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       116 ~~~~~~~~~~~~~~~~~---------~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                          ........+...+         ..++++.+||++|.|++++++.+.+..
T Consensus       207 ----~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~  255 (323)
T d2qm8a1         207 ----RASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  255 (323)
T ss_dssp             ----HHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHH
Confidence                2222222233322         124799999999999999999997754

>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=96.58  E-value=0.0073  Score=42.99  Aligned_cols=81  Identities=14%  Similarity=0.035  Sum_probs=47.5

Q ss_pred             ceeeEEEECCeEEEEEEEeCCCCccccccCc---------ccccCccEEEEEEeCCChh-hHHHHHHHHHHHHhhcCC--
Q 030337           24 NFSANVVVDGSTVNLGLWDTAGQEDYNRLRP---------LSYRGADVFILAFSLISKA-SYENVAKKWIPELRHYAP--   91 (179)
Q Consensus        24 ~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~---------~~~~~~~~~i~v~d~~~~~-s~~~~~~~~~~~i~~~~~--   91 (179)
                      ........++  ..+.++||||-........         ......+++++|.++++.. +-.+.  ..+..+.+.++  
T Consensus        70 ~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~--~~l~~l~~~fg~~  145 (257)
T d1h65a_          70 PVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDK--LVAKAITDSFGKG  145 (257)
T ss_dssp             CEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHH--HHHHHHHHHHCGG
T ss_pred             EEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHH--HHHHHHHHHcchh
Confidence            3344455677  5689999999532211100         1234678999998887642 22222  23333433321  


Q ss_pred             -CCcEEEEEeCCCccccc
Q 030337           92 -GVPIILVGTKLDLRDDK  108 (179)
Q Consensus        92 -~~piilv~nK~D~~~~~  108 (179)
                       -.++++|.||+|.....
T Consensus       146 ~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         146 IWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             GGGGEEEEEECCSCCCGG
T ss_pred             hhhCEEEEEECcccCCcC
Confidence             25799999999997644

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.29  E-value=0.0012  Score=49.13  Aligned_cols=103  Identities=19%  Similarity=0.221  Sum_probs=55.9

Q ss_pred             EEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCC
Q 030337           38 LGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGA  117 (179)
Q Consensus        38 ~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~  117 (179)
                      +.|.+|.|.-.-.   ......+|.+++|.+....+..+....    .+-+    .+=++|.||+|+.....        
T Consensus       149 ~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~----gi~e----~aDi~VvNKaD~~~~~~--------  209 (327)
T d2p67a1         149 VVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK----GLME----VADLIVINKDDGDNHTN--------  209 (327)
T ss_dssp             EEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH----HHHH----HCSEEEECCCCTTCHHH--------
T ss_pred             eEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhch----hhhc----cccEEEEEeecccchHH--------
Confidence            4455555532211   124567999999988665555543321    2221    34478889999965331        


Q ss_pred             ccccHHHHHHHHHHh------CCCeEEEeccCCCCcHHHHHHHHHHHH
Q 030337          118 VPITTAQGEELRKLI------GSPAYIECSSKTQQNVKAVFDAAIKVV  159 (179)
Q Consensus       118 ~~~~~~~~~~~~~~~------~~~~~~e~Sa~~~~~i~~~f~~l~~~i  159 (179)
                      ......+.......+      ..++.+.|||++|.|++++++.|.+..
T Consensus       210 ~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         210 VAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             HHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHH
Confidence            001111122222211      114689999999999999999987743

>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=94.43  E-value=0.029  Score=40.36  Aligned_cols=68  Identities=25%  Similarity=0.185  Sum_probs=44.1

Q ss_pred             EEEEEeCCCCcccc-------------ccCcccccCcc-EEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           37 NLGLWDTAGQEDYN-------------RLRPLSYRGAD-VFILAFSLISKASYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G~~~~~-------------~~~~~~~~~~~-~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      .+.++|+||-....             .+...|+.+.+ ++++|.+.+...+-... ..|.+.+...  ..++++|.||+
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~-~~~~~~~~~~--~~r~i~Vltk~  202 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA-LKIAKEVDPQ--GQRTIGVITKL  202 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH-HHHHHHHCTT--CSSEEEEEECG
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHH-HHHHHHhCcC--CCceeeEEecc
Confidence            47899999953321             22344566666 55566666665555554 4555555444  46899999999


Q ss_pred             Ccccc
Q 030337          103 DLRDD  107 (179)
Q Consensus       103 D~~~~  107 (179)
                      |...+
T Consensus       203 D~~~~  207 (299)
T d2akab1         203 DLMDE  207 (299)
T ss_dssp             GGSCT
T ss_pred             ccccc
Confidence            99764

>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=93.98  E-value=0.016  Score=41.95  Aligned_cols=68  Identities=26%  Similarity=0.253  Sum_probs=42.2

Q ss_pred             EEEEEeCCCCccc-------------cccCcccccCccEEEEEEe-CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCC
Q 030337           37 NLGLWDTAGQEDY-------------NRLRPLSYRGADVFILAFS-LISKASYENVAKKWIPELRHYAPGVPIILVGTKL  102 (179)
Q Consensus        37 ~~~i~D~~G~~~~-------------~~~~~~~~~~~~~~i~v~d-~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~  102 (179)
                      .+.|+||||-...             ..++..|+.+++++++++. ......-+.. ..+.+.+...  ..++++|.||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~-~~~~~~~~~~--~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDA-LQLAKEVDPE--GKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSH-HHHHHHHCSS--CSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHH-HHHHHHhCcC--CCeEEEEEecc
Confidence            5889999995432             1244557888998766654 3333222222 3455555433  46899999999


Q ss_pred             Ccccc
Q 030337          103 DLRDD  107 (179)
Q Consensus       103 D~~~~  107 (179)
                      |....
T Consensus       209 D~~~~  213 (306)
T d1jwyb_         209 DLMDK  213 (306)
T ss_dssp             TSSCS
T ss_pred             ccccc
Confidence            99653

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=84.96  E-value=2.3  Score=27.49  Aligned_cols=55  Identities=16%  Similarity=0.198  Sum_probs=41.3

Q ss_pred             CCChhhHHHHHHHHHHHHhhcCCCCcEEEEEeCCCcccccccccCCCCCccccHHHHHHHHHHhCCCeEEEe
Q 030337           69 LISKASYENVAKKWIPELRHYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTAQGEELRKLIGSPAYIEC  140 (179)
Q Consensus        69 ~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~  140 (179)
                      .+|+.+++.......+.+...  ..|+|++|.......              ..++..++++..++ +++.+
T Consensus         2 ~sd~~~l~~~v~~~~~~l~~A--krPvIi~G~g~~~~~--------------a~~~l~~lae~~~~-Pv~tt   56 (175)
T d1zpda1           2 ASDEASLNAAVDETLKFIANR--DKVAVLVGSKLRAAG--------------AEEAAVKFTDALGG-AVATM   56 (175)
T ss_dssp             CCCHHHHHHHHHHHHHHHTTC--SCEEEEECTTTTTTT--------------CHHHHHHHHHHHCC-CEEEE
T ss_pred             CCChHHHHHHHHHHHHHHHcC--CCEEEEECcCccccc--------------hHHHHHHHHHhhce-eEEec
Confidence            367777877766666666654  789999999998743              35688999999999 56543

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=82.84  E-value=2.7  Score=27.91  Aligned_cols=66  Identities=14%  Similarity=0.065  Sum_probs=45.0

Q ss_pred             EEEEEEEeCCCCccccccCcccccCccEEEEEEeCCChhhHHHHHHHHHHHHhhcCCCCcEE-EEEeCCCccc
Q 030337           35 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPII-LVGTKLDLRD  106 (179)
Q Consensus        35 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~pii-lv~nK~D~~~  106 (179)
                      .+.+.|+|+++....  .....+..+|.++++...+ ..++..+ ......+++.  +.|++ +|.|+.+...
T Consensus       111 ~~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~-~~~~~~~~~~--~~~~~giv~N~~~~~~  177 (237)
T d1g3qa_         111 KFDFILIDCPAGLQL--DAMSAMLSGEEALLVTNPE-ISCLTDT-MKVGIVLKKA--GLAILGFVLNRYGRSD  177 (237)
T ss_dssp             GCSEEEEECCSSSSH--HHHHHHTTCSEEEEEECSC-HHHHHHH-HHHHHHHHHT--TCEEEEEEEEEETSCT
T ss_pred             cCCEEEEcccccccc--cchhhhhhhhccccccccc-ceecchh-hHHHHHHhhh--hhhhhhhhhccccccc
Confidence            356889999886432  2233466799999998864 6666666 4555666554  67766 8899998654